Running with gitlab-runner 13.10.0 (54944146)  on 46f8988f404a-shared TD5kecTn section_start:1646998473:prepare_executor Preparing the "docker" executor Using Docker executor with image ubuntu:rolling ... Pulling docker image ubuntu:rolling ... Using docker image sha256:305cdd15bb4f6da8779bc9f47c48d0bda1517af99cae5543489181ad1327af5f for ubuntu:rolling with digest ubuntu@sha256:02c0317b899ca5595fa17870cedd9550962dbdb2e0b55def018727527b57e2f4 ... section_end:1646998475:prepare_executor section_start:1646998475:prepare_script Preparing environment Running on runner-td5kectn-project-17-concurrent-0 via 46f8988f404a... section_end:1646998475:prepare_script section_start:1646998475:get_sources Getting source from Git repository Fetching changes with git depth set to 20... Initialized empty Git repository in /builds/gitlab/mbees/boxmox/.git/ Created fresh repository. Checking out 40bb849f as master... Skipping Git submodules setup section_end:1646998477:get_sources section_start:1646998477:restore_cache Restoring cache Checking cache for default... No URL provided, cache will not be downloaded from shared cache server. Instead a local version of cache will be extracted. Successfully extracted cache section_end:1646998477:restore_cache section_start:1646998477:step_script Executing "step_script" stage of the job script Using docker image sha256:305cdd15bb4f6da8779bc9f47c48d0bda1517af99cae5543489181ad1327af5f for ubuntu:rolling with digest ubuntu@sha256:02c0317b899ca5595fa17870cedd9550962dbdb2e0b55def018727527b57e2f4 ... $ DEBIAN_FRONTEND=noninteractive apt-get -qq update $ DEBIAN_FRONTEND=noninteractive apt-get -qq install wget patch make gcc gfortran flex bison texlive autoconf autotools-dev debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libsigsegv2:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4386 files and directories currently installed.) Preparing to unpack .../000-libsigsegv2_2.13-1ubuntu2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.13-1ubuntu2) ... Selecting previously unselected package m4. Preparing to unpack .../001-m4_1.4.18-5ubuntu1_amd64.deb ... Unpacking m4 (1.4.18-5ubuntu1) ... Selecting previously unselected package flex. Preparing to unpack .../002-flex_2.6.4-8build1_amd64.deb ... Unpacking flex (2.6.4-8build1) ... 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Setting up patch (2.7.6-7) ... Setting up libwebp6:amd64 (0.6.1-2.1) ... Setting up fonts-dejavu-core (2.37-2build1) ... Setting up libfl2:amd64 (2.6.4-8build1) ... Setting up ucf (3.0043) ... Setting up fonts-texgyre (20180621-3.1) ... Setting up libsensors5:amd64 (1:3.6.0-7) ... Setting up fonts-tlwg-typist-ttf (1:0.7.2-1build1) ... Setting up libjpeg-turbo8:amd64 (2.0.6-0ubuntu2) ... Setting up libglapi-mesa:amd64 (21.2.6-0ubuntu0.1) ... Setting up libkpathsea6:amd64 (2020.20200327.54578-7) ... Setting up libgfortran5:amd64 (11.2.0-7ubuntu2) ... Setting up libvulkan1:amd64 (1.2.162.0-1build1) ... Setting up libubsan1:amd64 (11.2.0-7ubuntu2) ... Setting up libmd0:amd64 (1.0.3-3build1) ... Setting up fonts-tlwg-typewriter-ttf (1:0.7.2-1build1) ... Setting up libnsl-dev:amd64 (1.3.0-2build1) ... Setting up libxshmfence1:amd64 (1.3-1build3) ... Setting up libcrypt-dev:amd64 (1:4.4.18-4ubuntu1) ... Setting up fonts-tlwg-garuda (1:0.7.2-1build1) ... 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Setting up automake (1:1.16.4-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/automake.1.gz because associated file /usr/share/man/man1/automake-1.16.1.gz (of link group automake) doesn't exist update-alternatives: warning: skip creation of /usr/share/man/man1/aclocal.1.gz because associated file /usr/share/man/man1/aclocal-1.16.1.gz (of link group automake) doesn't exist Setting up mesa-vulkan-drivers:amd64 (21.2.6-0ubuntu0.1) ... Setting up libhttp-date-perl (6.05-1) ... Setting up libxft2:amd64 (2.3.3-0ubuntu4) ... Setting up libxmu6:amd64 (2:1.1.3-0ubuntu1) ... Setting up libfile-basedir-perl (0.08-1) ... Setting up libtie-ixhash-perl (1.23-2.1) ... Setting up libglx-mesa0:amd64 (21.2.6-0ubuntu0.1) ... Setting up libfile-listing-perl (6.14-1) ... Setting up xfonts-thai-poonlap (1:1.2.7-5) ... Setting up libgs9:amd64 (9.54.0~dfsg1-0ubuntu2.1) ... 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Setting up texlive-binaries (2020.20200327.54578-7) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/bibtex.1.gz because associated file /usr/share/man/man1/bibtex.original.1.gz (of link group bibtex) doesn't exist Setting up libhtml-parser-perl:amd64 (3.76-1) ... Setting up x11-utils (7.7+5build1) ... Setting up texlive-base (2020.20210202-3) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex Setting up libio-socket-ssl-perl (2.069-1) ... 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This may take some time... done. $ [ -f ./version ] && export VERSION=$(cat ./version) $ . build_dist.sh "$CI_PROJECT_DIR/build" --- pruning existing build dir --- --- prep Makefile.am --- --- build documentation --- This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./UserManual.tex LaTeX2e <2020-10-01> patch level 4 L3 programming layer <2021-01-09> xparse <2020-03-03> (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2020/04/10 v1.4m Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size11.clo)) (/usr/share/texlive/texmf-dist/tex/latex/geometry/geometry.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifvtex.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty))) (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip.sty (/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty (/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty)) (/usr/share/texlive/texmf-dist/tex/latex/etoolbox/etoolbox.sty)) (/usr/share/texlive/texmf-dist/tex/latex/tools/enumerate.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) No file UserManual.aux. *geometry* driver: auto-detecting *geometry* detected driver: pdftex [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] No file UserManual.toc. [2] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) [3] [4] [5] [6] LaTeX Warning: Reference `sec:adaptmechs' on page 7 undefined on input line 245 . [7] (../case_studies/BOXMOX.nml) [8] LaTeX Warning: Reference `sec:photrates' on page 9 undefined on input line 417. LaTeX Warning: Reference `sec:env' on page 9 undefined on input line 419. [9] [10] [11] [12] [13] LaTeX Warning: Reference `txt:fileformat' on page 14 undefined on input line 67 4. [14] [15] LaTeX Warning: Reference `sec:modmech' on page 16 undefined on input line 730. Overfull \hbox (37.8355pt too wide) in paragraph at lines 766--769 \T1/cmr/m/n/10.95 Once you cre-ated the 4 files (\T1/cmr/m/it/10.95 $KPP_HOME/e xamples/.kpp\T1/cmr/m/n/10.95 , \T1/cmr/m/it/10.95 $KPP_HOME/models/.(def|spc|eqn)\T1/cmr/m/n/10.95 ) [16] [17] (./UserManual.aux) kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecbi1095 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecbi1095 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbi1095.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbi.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/extextit.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exileast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exilwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exilig.mf Ok [25] [26] [27] [28] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exitalp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exillett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exidigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exiligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.079pt) Font metrics written on ecbi1095.tfm. Output written on ecbi1095.600gf (256 characters, 57548 bytes). Transcript written on ecbi1095.log. mktexpk: /root/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecbi1095.600pk: successfully generated. LaTeX Warning: There were undefined references. LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. ) (see the transcript file for additional information) kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecbx1095 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecbx1095 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx1095.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) Font metrics written on ecbx1095.tfm. Output written on ecbx1095.600gf (256 characters, 54848 bytes). Transcript written on ecbx1095.log. mktexpk: /root/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecbx1095.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ectt1095 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ectt1095 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt1095.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exmligtb.mf Ok) ) ) ) Font metrics written on ectt1095.tfm. Output written on ectt1095.600gf (256 characters, 47796 bytes). Transcript written on ectt1095.log. mktexpk: /root/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ectt1095.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 tcrm1095 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input tcrm1095 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/tcrm1095.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/tcrm.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txsymb.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txpseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [27] [29]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txgen.mf Ok [100] [109] [98] [99] [108]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txsymbol.mf Ok [13] [18] [21] [22] [23] [24] [25] [26] [28] [31] [32] [36] [39] [44] [45] [46] [42] [47] [60] [61] [62] [77] [79] [87] [110] [91] [93] [94] [95] [96] [126] [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [171] [172] [173] [174] [175] [177] [176] [180] [181] [182] [183] [184] [187] [191] [214] [246]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txromod.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txrsuper.mf Ok [185] [178] [179] [170] [186]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txrfract.mf Ok [188] [189] [190]) ) ) ) (some charht values had to be adjusted by as much as 0.06952pt) Font metrics written on tcrm1095.tfm. Output written on tcrm1095.600gf (128 characters, 25592 bytes). Transcript written on tcrm1095.log. mktexpk: /root/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/tcrm1095.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecti1095 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecti1095 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecti1095.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecti.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/extextit.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exileast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exilwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exilig.mf Ok [25] [26] [27] [28] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exitalp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exillett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exidigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exiligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.06808pt) Font metrics written on ecti1095.tfm. Output written on ecti1095.600gf (256 characters, 57920 bytes). Transcript written on ecti1095.log. mktexpk: /root/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecti1095.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecbx1200 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecbx1200 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx1200.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) Font metrics written on ecbx1200.tfm. Output written on ecbx1200.600gf (256 characters, 59220 bytes). Transcript written on ecbx1200.log. mktexpk: /root/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecbx1200.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecbx1440 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecbx1440 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx1440.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.10997pt) Font metrics written on ecbx1440.tfm. Output written on ecbx1440.600gf (256 characters, 70764 bytes). Transcript written on ecbx1440.log. mktexpk: /root/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecbx1440.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecrm1095 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecrm1095 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm1095.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.07599pt) Font metrics written on ecrm1095.tfm. Output written on ecrm1095.600gf (256 characters, 55424 bytes). Transcript written on ecrm1095.log. mktexpk: /root/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecrm1095.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecrm1728 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecrm1728 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm1728.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.0972pt) Font metrics written on ecrm1728.tfm. Output written on ecrm1728.600gf (256 characters, 84608 bytes). Transcript written on ecrm1728.log. mktexpk: /root/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecrm1728.600pk: successfully generated. Output written on UserManual.pdf (17 pages, 203878 bytes). Transcript written on UserManual.log. This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./UserManual.tex LaTeX2e <2020-10-01> patch level 4 L3 programming layer <2021-01-09> xparse <2020-03-03> (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2020/04/10 v1.4m Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size11.clo)) (/usr/share/texlive/texmf-dist/tex/latex/geometry/geometry.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifvtex.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty))) (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip.sty (/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty (/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty)) (/usr/share/texlive/texmf-dist/tex/latex/etoolbox/etoolbox.sty)) (/usr/share/texlive/texmf-dist/tex/latex/tools/enumerate.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) (./UserManual.aux) *geometry* driver: auto-detecting *geometry* detected driver: pdftex [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] (./UserManual.toc (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd)) [2] [3] [4] [5] [6] [7] (../case_studies/BOXMOX.nml) [8] [9] [10] [11] [12] [13] [14] [15] Overfull \hbox (37.8355pt too wide) in paragraph at lines 766--769 \T1/cmr/m/n/10.95 Once you cre-ated the 4 files (\T1/cmr/m/it/10.95 $KPP_HOME/e xamples/.kpp\T1/cmr/m/n/10.95 , \T1/cmr/m/it/10.95 $KPP_HOME/models/.(def|spc|eqn)\T1/cmr/m/n/10.95 ) [16] [17] (./UserManual.aux) ) (see the transcript file for additional information) Output written on UserManual.pdf (17 pages, 205394 bytes). Transcript written on UserManual.log. --- aclocal --- --- autoconf --- --- automake --- configure.ac:8: installing './compile' configure.ac:7: installing './install-sh' configure.ac:7: installing './missing' src/Makefile.am: installing './depcomp' configure.ac: installing './ylwrap' --- configure --- checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking how to create a pax tar archive... gnutar checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... gcc3 checking for flex... flex checking lex output file root... lex.yy checking lex library... -lfl checking whether yytext is a pointer... yes checking for bison... bison -y checking for a sed that does not truncate output... /usr/bin/sed checking for gfortran... gfortran checking whether we are using the GNU Fortran compiler... yes checking whether gfortran accepts -g... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: executing depfiles commands --- makec maintainer-clean --- Making maintainer-clean in src make[1]: Entering directory '/builds/gitlab/mbees/boxmox/src' test -z "kpp" || rm -f kpp rm -f *.o rm -f *.tab.c test -z "" || rm -f test . = "." || test -z "" || rm -f rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags This command is intended for maintainers to use it deletes files that may require special tools to rebuild. rm -f bison.c rm -f bison.h rm -f yacc.c test -z "yacc.c bison.c bison.h" || rm -f yacc.c bison.c bison.h rm -f ./.deps/bison.Po rm -f ./.deps/code.Po rm -f ./.deps/code_c.Po rm -f ./.deps/code_f77.Po rm -f ./.deps/code_f90.Po rm -f ./.deps/code_matlab.Po rm -f ./.deps/debug.Po rm -f ./.deps/gen.Po rm -f ./.deps/kpp.Po rm -f ./.deps/scanner.Po rm -f ./.deps/scanutil.Po rm -f ./.deps/yacc.Po rm -f Makefile make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/src' make[1]: Entering directory '/builds/gitlab/mbees/boxmox' test -z "" || rm -f test . = "." || test -z "" || rm -f rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags rm -f cscope.out cscope.in.out cscope.po.out cscope.files This command is intended for maintainers to use it deletes files that may require special tools to rebuild. make[1]: Leaving directory '/builds/gitlab/mbees/boxmox' rm -f config.status config.cache config.log configure.lineno config.status.lineno rm -rf ./autom4te.cache rm -f Makefile --- configure --- checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking how to create a pax tar archive... gnutar checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... gcc3 checking for flex... flex checking lex output file root... lex.yy checking lex library... -lfl checking whether yytext is a pointer... yes checking for bison... bison -y checking for a sed that does not truncate output... /usr/bin/sed checking for gfortran... gfortran checking whether we are using the GNU Fortran compiler... yes checking whether gfortran accepts -g... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: executing depfiles commands --- make --- Making all in src make[1]: Entering directory '/builds/gitlab/mbees/boxmox/src' /bin/bash ../ylwrap yacc.l lex.yy.c yacc.c -- flex /bin/bash ../ylwrap bison.y y.tab.c bison.c y.tab.h `echo bison.c | sed -e s/cc$/hh/ -e s/cpp$/hpp/ -e s/cxx$/hxx/ -e s/c++$/h++/ -e s/c$/h/` y.output bison.output -- bison -y -d /builds/gitlab/mbees/boxmox/src/bison.y:88.13-21: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 88 | %type PARAMETER SPCSPC INISPC INIVALUE EQNSPC EQNSIGN EQNCOEF | ^~~~~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:88.23-28: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 88 | %type PARAMETER SPCSPC INISPC INIVALUE EQNSPC EQNSIGN EQNCOEF | ^~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:88.30-35: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 88 | %type PARAMETER SPCSPC INISPC INIVALUE EQNSPC EQNSIGN EQNCOEF | ^~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:88.37-44: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 88 | %type PARAMETER SPCSPC INISPC INIVALUE EQNSPC EQNSIGN EQNCOEF | ^~~~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:88.46-51: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 88 | %type PARAMETER SPCSPC INISPC INIVALUE EQNSPC EQNSIGN EQNCOEF | ^~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:88.53-59: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 88 | %type PARAMETER SPCSPC INISPC INIVALUE EQNSPC EQNSIGN EQNCOEF | ^~~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:88.61-67: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 88 | %type PARAMETER SPCSPC INISPC INIVALUE EQNSPC EQNSIGN EQNCOEF | ^~~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:90.13-16: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 90 | %type RATE LMPSPC SPCNR ATOMID LKTID MNIID INLCTX INCODE SSPID | ^~~~ /builds/gitlab/mbees/boxmox/src/bison.y:90.18-23: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 90 | %type RATE LMPSPC SPCNR ATOMID LKTID MNIID INLCTX INCODE SSPID | ^~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:90.25-29: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 90 | %type RATE LMPSPC SPCNR ATOMID LKTID MNIID INLCTX INCODE SSPID | ^~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:90.31-36: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 90 | %type RATE LMPSPC SPCNR ATOMID LKTID MNIID INLCTX INCODE SSPID | ^~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:90.38-42: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 90 | %type RATE LMPSPC SPCNR ATOMID LKTID MNIID INLCTX INCODE SSPID | ^~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:90.44-48: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 90 | %type RATE LMPSPC SPCNR ATOMID LKTID MNIID INLCTX INCODE SSPID | ^~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:90.50-55: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 90 | %type RATE LMPSPC SPCNR ATOMID LKTID MNIID INLCTX INCODE SSPID | ^~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:90.57-62: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 90 | %type RATE LMPSPC SPCNR ATOMID LKTID MNIID INLCTX INCODE SSPID | ^~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:90.64-68: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 90 | %type RATE LMPSPC SPCNR ATOMID LKTID MNIID INLCTX INCODE SSPID | ^~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:92.13-19: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 92 | %type EQNLESS EQNTAG EQNGREATER | ^~~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:92.21-26: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 92 | %type EQNLESS EQNTAG EQNGREATER | ^~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:92.28-37: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 92 | %type EQNLESS EQNTAG EQNGREATER | ^~~~~~~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:94.13-17: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 94 | %type TPTID USEID | ^~~~~ /builds/gitlab/mbees/boxmox/src/bison.y:94.19-23: warning: POSIX yacc reserves %type to nonterminals [-Wyacc] 94 | %type TPTID USEID | ^~~~~ updating bison.h make all-am make[2]: Entering directory '/builds/gitlab/mbees/boxmox/src' gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT code.o -MD -MP -MF .deps/code.Tpo -c -o code.o code.c code.c: In function 'FlushBuf': code.c:194:3: warning: format not a string literal and no format arguments [-Wformat-security] 194 | fprintf( currentFile, outBuf ); | ^~~~~~~ code.c: In function 'FlushThisBuf': code.c:206:3: warning: format not a string literal and no format arguments [-Wformat-security] 206 | fprintf( currentFile, buf ); | ^~~~~~~ code.c: In function 'IncludeFile': code.c:240:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 240 | fgets( line, MAX_LINE, fp ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ code.c: In function 'IncludeCode': code.c:305:3: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] 305 | system( cmd ); | ^~~~~~~~~~~~~ code.c:308:3: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] 308 | system( cmd ); | ^~~~~~~~~~~~~ code.c:262:37: warning: '.f90' directive writing 4 bytes into a region of size between 1 and 200 [-Wformat-overflow=] 262 | case F90_LANG: sprintf( buf, "%s.f90", buf ); | ^~~~ In file included from /usr/include/stdio.h:888, from gdata.h:37, from code.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output between 5 and 204 bytes into a destination of size 200 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ code.c:266:40: warning: '.m' directive writing 2 bytes into a region of size between 1 and 200 [-Wformat-overflow=] 266 | case MATLAB_LANG: sprintf( buf, "%s.m", buf ); | ^~ In file included from /usr/include/stdio.h:888, from gdata.h:37, from code.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output between 3 and 202 bytes into a destination of size 200 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ code.c:264:35: warning: '.c' directive writing 2 bytes into a region of size between 1 and 200 [-Wformat-overflow=] 264 | case C_LANG: sprintf( buf, "%s.c", buf ); | ^~ In file included from /usr/include/stdio.h:888, from gdata.h:37, from code.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output between 3 and 202 bytes into a destination of size 200 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ code.c:260:37: warning: '.f' directive writing 2 bytes into a region of size between 1 and 200 [-Wformat-overflow=] 260 | case F77_LANG: sprintf( buf, "%s.f", buf ); | ^~ In file included from /usr/include/stdio.h:888, from gdata.h:37, from code.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output between 3 and 202 bytes into a destination of size 200 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mv -f .deps/code.Tpo .deps/code.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT code_c.o -MD -MP -MF .deps/code_c.Tpo -c -o code_c.o code_c.c code_c.c: In function 'C_DeclareConstant': code_c.c:371:25: warning: too many arguments for format [-Wformat-extra-args] 371 | printf( "Invalid constant", var->type ); | ^~~~~~~~~~~~~~~~~~ mv -f .deps/code_c.Tpo .deps/code_c.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT code_f77.o -MD -MP -MF .deps/code_f77.Tpo -c -o code_f77.o code_f77.c mv -f .deps/code_f77.Tpo .deps/code_f77.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT code_f90.o -MD -MP -MF .deps/code_f90.Tpo -c -o code_f90.o code_f90.c mv -f .deps/code_f90.Tpo .deps/code_f90.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT code_matlab.o -MD -MP -MF .deps/code_matlab.Tpo -c -o code_matlab.o code_matlab.c mv -f .deps/code_matlab.Tpo .deps/code_matlab.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT debug.o -MD -MP -MF .deps/debug.Tpo -c -o debug.o debug.c mv -f .deps/debug.Tpo .deps/debug.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT gen.o -MD -MP -MF .deps/gen.Tpo -c -o gen.o gen.c gen.c: In function 'EqnStr': gen.c:381:22: warning: zero-length gnu_printf format string [-Wformat-zero-length] 381 | sprintf(s, ""); | ^~ gen.c: In function 'GenerateF90Modules': gen.c:3147:36: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'int' [-Wformat=] 3147 | printf("\n Unrecognized option '%s' in GenerateF90Modules\n", where); | ~^ ~~~~~ | | | | char * int | %d gen.c: In function 'Generate': gen.c:3181:39: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'int' [-Wformat=] 3181 | default: printf("\n Language no '%s' unknown\n",useLang ); | ~^ ~~~~~~~ | | | | char * int | %d gen.c: In function 'ascid': gen.c:110:19: warning: '_dp' directive writing 3 bytes into a region of size between 1 and 40 [-Wformat-overflow=] 110 | sprintf(s, "%s_dp",s); | ^~~ In file included from /usr/include/stdio.h:888, from gdata.h:37, from gen.c:35: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output between 4 and 43 bytes into a destination of size 40 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mv -f .deps/gen.Tpo .deps/gen.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT kpp.o -MD -MP -MF .deps/kpp.Tpo -c -o kpp.o kpp.c kpp.c: In function 'Postprocess': kpp.c:472:5: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] 472 | system( buf ); | ^~~~~~~~~~~~~ mv -f .deps/kpp.Tpo .deps/kpp.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT scanner.o -MD -MP -MF .deps/scanner.Tpo -c -o scanner.o scanner.c scanner.c: In function 'CheckEquation': scanner.c:640:25: warning: '%s' directive writing up to 2999 bytes into a region of size 79 [-Wformat-overflow=] 640 | sprintf(errmsg, "%s %s", errmsg, AtomTable[i].name ); | ^~~~~~~ In file included from /usr/include/stdio.h:888, from gdata.h:37, from scanner.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output 2 or more bytes (assuming 3001) into a destination of size 80 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mv -f .deps/scanner.Tpo .deps/scanner.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT scanutil.o -MD -MP -MF .deps/scanutil.Tpo -c -o scanutil.o scanutil.c scanutil.c: In function 'FileName': scanutil.c:180:32: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=] 180 | sprintf(pathname,"%s/%s",pathname,name); | ^ In file included from /usr/include/stdio.h:888, from scanutil.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output 2 or more bytes (assuming 121) into a destination of size 120 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ scanutil.c:195:27: warning: '/' directive writing 1 byte into a region of size between 0 and 119 [-Wformat-overflow=] 195 | sprintf(pathname, "%s/%s/%s", Home, dir, name); | ^ In file included from /usr/include/stdio.h:888, from scanutil.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output 3 or more bytes (assuming 122) into a destination of size 120 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mv -f .deps/scanutil.Tpo .deps/scanutil.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT yacc.o -MD -MP -MF .deps/yacc.Tpo -c -o yacc.o yacc.c mv -f .deps/yacc.Tpo .deps/yacc.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -g -O2 -MT bison.o -MD -MP -MF .deps/bison.Tpo -c -o bison.o bison.c mv -f .deps/bison.Tpo .deps/bison.Po gcc -g -O2 -o kpp code.o code_c.o code_f77.o code_f90.o code_matlab.o debug.o gen.o kpp.o scanner.o scanutil.o yacc.o bison.o make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/src' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/src' make[1]: Entering directory '/builds/gitlab/mbees/boxmox' make[1]: Nothing to be done for 'all-am'. make[1]: Leaving directory '/builds/gitlab/mbees/boxmox' --- make install --- Making install in src make[1]: Entering directory '/builds/gitlab/mbees/boxmox/src' make install-am make[2]: Entering directory '/builds/gitlab/mbees/boxmox/src' make[3]: Entering directory '/builds/gitlab/mbees/boxmox/src' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/bin' /usr/bin/install -c kpp '/builds/gitlab/mbees/boxmox/build/bin' make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/builds/gitlab/mbees/boxmox/src' make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/src' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/src' make[1]: Entering directory '/builds/gitlab/mbees/boxmox' make[2]: Entering directory '/builds/gitlab/mbees/boxmox' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/bin' /usr/bin/install -c scripts/list_BOXMOX_mechanisms scripts/new_BOXMOX_experiment scripts/new_BOXMOX_experiment_from_example scripts/prepare_BOXMOX_mechanism scripts/validate_BOXMOX_installation '/builds/gitlab/mbees/boxmox/build/bin' /usr/bin/mkdir -p /builds/gitlab/mbees/boxmox/build/share/boxmox/compiled_mechs /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/doc/boxmox' /usr/bin/install -c -m 644 README.md doc/kpp_UserManual.pdf doc/boxmox_UserManual.pdf '/builds/gitlab/mbees/boxmox/build/share/doc/boxmox' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/int' /usr/bin/install -c -m 644 int/runge_kutta_adj.f90 int/atm_lsodes.f int/rosenbrock_adj.c int/gillespie.f90 int/kpp_seulex.f int/rosenbrock_tlm.def int/atm_lsodes.def int/kpp_dvode.f int/kpp_seulex.def int/none.def int/atm_radau5.f int/gillespie.def int/readme int/atm_radau5.def int/runge_kutta_tlm.f90 int/kpp_dvode.def int/sdirk.f90 int/sdirk_adj.c int/rosenbrock.c int/none.f90 int/runge_kutta.m int/runge_kutta_adj.def int/runge_kutta.c int/runge_kutta.def int/kpp_seulex.f90 int/kpp_lsode.def int/sdirk_tlm.f90 int/sdirk.def int/rosenbrock.f int/kpp_lsode.f90 int/gillespie.c int/sdirk.f int/kpp_dvode.f90.save int/tau_leap.f90 int/sdirk_adj.f90 int/rosenbrock.m int/none.f int/kpp_sdirk4.f90 int/rosenbrock_adj.f90 int/sdirk_adj.def '/builds/gitlab/mbees/boxmox/build/share/boxmox/int' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/models' /usr/bin/install -c -m 644 models/NO_NO2.spc models/RADM2.spc models/MCMv3_3.def models/RACM.eqn models/RACM.spc models/CB05TUCl_NCSU.spc models/NO_NO2.eqn models/RADMKA.spc models/MOZART_4.def models/MOZART_T1.def models/MCMv3_3.spc models/CB05TUCl_EPA.spc models/CB05TUCl_EPA.eqn models/RACM.def models/CB05_CSIRO.spc models/MOZART_4.spc models/CB05TUCl_EPA.def models/SAPRC99.spc models/RADMKA.eqn models/smog.spc models/HETCHEM.def models/RADM2.def models/MOZART_T1.eqn models/atoms_red models/RADMKA.def models/CB05TUCl_NCSU.def models/HETCHEM.spc models/MOZART_4.eqn models/atoms models/RADM2.eqn models/CB05TUCl_NCSU.eqn models/smog.eqn models/CB05_CSIRO.eqn models/smog.def models/NO_NO2.def models/CBMZ.def models/HETCHEM.eqn models/CBMZ.eqn models/MCMv3_3.eqn models/MOZART_T1.spc '/builds/gitlab/mbees/boxmox/build/share/boxmox/models' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/util' /usr/bin/install -c -m 644 util/UpdateSun.c util/UserRateLaws.f90 util/UpdateSun.f90 util/Mex_Jac_SP.f90 util/mex.f util/dFun_dRcoeff.c util/blas.f util/ncar.c util/UpdateSun.f util/sutil.c util/Template_Fun_Chem.m util/Mex_Fun.f util/sparsity_plots.m util/sutil.f util/UserRateLaws_FcnHeader.f util/Mex_Jac_SP.f util/UserRateLaws_BOXMOX.f90 util/Mex_Hessian.f util/ncar.h util/Makefile.c util/Makefile.f90 util/UserRateLaws.f util/Mex_Hessian.f90 util/Mex_Jac_SP.c util/Mex_Fun.f90 util/dFun_dRcoeff.m util/dJac_dRcoeff.f90 util/mex.c util/util.f util/util.c util/util.f90 util/Makefile.f util/Template_Jac_Chem.m util/UserRateLaws.m util/dFun_dRcoeff.f90 util/Mex_Hessian.c util/dJac_dRcoeff.m util/sutil.f90 util/blas.f90 util/dJac_dRcoeff.f '/builds/gitlab/mbees/boxmox/build/share/boxmox/util' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/int/DVODE' /usr/bin/install -c -m 644 int/DVODE/dvode_f90_m.f90 int/DVODE/stiffoptions.dat int/DVODE/example1.f90 int/DVODE/dvode_f90_m.mod int/DVODE/NonstiffOptionsReadme.txt int/DVODE/a.out int/DVODE/example1.mod int/DVODE/nonstiffoptions.f90 int/DVODE/test.f90 int/DVODE/stiffoptions.f90 int/DVODE/ChangeRecord.txt int/DVODE/example2.f90 int/DVODE/StiffOptionsReadme.txt int/DVODE/quickstart.pdf int/DVODE/stiffset.mod int/DVODE/example1.dat '/builds/gitlab/mbees/boxmox/build/share/boxmox/int/DVODE' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies/dilution' /usr/bin/install -c -m 644 case_studies/dilution/BOXMOX.nml case_studies/dilution/PhotolysisRates.csv case_studies/dilution/Background.csv case_studies/dilution/InitialConditions.csv case_studies/dilution/mech_used case_studies/dilution/plot.R case_studies/dilution/README case_studies/dilution/Environment.csv '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies/dilution' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/util' /usr/bin/install -c -m 644 util/blas.c util/dJac_dRcoeff.c util/Mex_Fun.c util/dFun_dRcoeff.f util/tag2num.f90 util/util.m util/UpdateSun.m util/UserRateLaws.c '/builds/gitlab/mbees/boxmox/build/share/boxmox/util' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/models' /usr/bin/install -c -m 644 models/CBMZ.spc models/SAPRC99.def models/SAPRC99.eqn models/CB05_CSIRO.def '/builds/gitlab/mbees/boxmox/build/share/boxmox/models' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/int/oldies' /usr/bin/install -c -m 644 int/oldies/ros3.f int/oldies/qssafix.f int/oldies/qssa.f int/oldies/ros4_ddm.f int/oldies/kpp_ros4.f int/oldies/ros4.def int/oldies/ros3_ddm.def int/oldies/ros2_ddm.f int/oldies/ros2_cts_adj.f int/oldies/rodas3.f int/oldies/qssa1.f int/oldies/twostepj.f int/oldies/ros1.f int/oldies/ros2.f int/oldies/kpp_rodas.f int/oldies/rodas3.def int/oldies/qssafix.def int/oldies/ros1.def int/oldies/exqssa.def int/oldies/ros1_ddm.def int/oldies/exqssa.c int/oldies/ros3.def int/oldies/ros2.f90 int/oldies/rodas3_ddm.f int/oldies/ros3.c int/oldies/qssa.def int/oldies/ros1_ddm.f int/oldies/ros3_ddm.f int/oldies/kpp_ros4.def int/oldies/ros2_ddm.def int/oldies/ros2.c int/oldies/rodas3.c int/oldies/ros4_ddm.def int/oldies/kpp_rodas.def int/oldies/exqssa.f int/oldies/twostepj.def int/oldies/ros4.f int/oldies/rodas3_ddm.def int/oldies/ros2.def '/builds/gitlab/mbees/boxmox/build/share/boxmox/int/oldies' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies' /usr/bin/install -c -m 644 case_studies/BOXMOX.nml '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/examples' /usr/bin/install -c -m 644 examples/CB05TUCl_NCSU.kpp examples/RADM2_wrfkpp.equiv examples/smog.kpp examples/MOZART_T1.kpp examples/NO_NO2.kpp examples/HETCHEM.kpp examples/MCMv3_3.kpp examples/CBMZ_wrfkpp.equiv examples/CB05_CSIRO.kpp examples/MOZART_T1_wrfkpp.equiv examples/MOZART_4_wrfkpp.equiv examples/RADM2.kpp examples/SAPRC99.kpp examples/MOZART_4.kpp examples/CB05TUCl_EPA.kpp examples/CBMZ.kpp examples/RACM_wrfkpp.equiv examples/RADMKA.kpp examples/RACM.kpp examples/SAPRC99_wrfkpp.equiv '/builds/gitlab/mbees/boxmox/build/share/boxmox/examples' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/boxmox' /usr/bin/install -c -m 644 boxmox/wrapper boxmox/UserManual.tex '/builds/gitlab/mbees/boxmox/build/share/boxmox/boxmox' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/int' /usr/bin/install -c -m 644 int/tau_leap.def int/kpp_dvode.f90 int/rosenbrock_adj.def int/atm_odessa_ddm.f int/atm_odessa_ddm.def int/kpp_odessa_ddm.f int/kpp_sdirk4.def int/kpp_sdirk4.f int/none.c int/rosenbrock_tlm.f90 int/none.m int/rosenbrock.def int/runge_kutta.f90 int/rosenbrock.f90 int/sdirk_tlm.def int/sdirk.m int/kpp_odessa_ddm.def int/kpp_radau5.f90 int/sdirk.c int/runge_kutta_tlm.def int/kpp_radau5.def '/builds/gitlab/mbees/boxmox/build/share/boxmox/int' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/int/user_contributed' /usr/bin/install -c -m 644 int/user_contributed/readme int/user_contributed/ros2_manual.f90 int/user_contributed/ros2_manual.def '/builds/gitlab/mbees/boxmox/build/share/boxmox/int/user_contributed' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies/urban_plume' /usr/bin/install -c -m 644 case_studies/urban_plume/BOXMOX.nml case_studies/urban_plume/PhotolysisRates.csv case_studies/urban_plume/InitialConditions.csv case_studies/urban_plume/mech_used case_studies/urban_plume/Deposition.csv case_studies/urban_plume/Emissions.csv case_studies/urban_plume/plot.R case_studies/urban_plume/README case_studies/urban_plume/Environment.csv '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies/urban_plume' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies/het_chem' /usr/bin/install -c -m 644 case_studies/het_chem/BOXMOX.nml case_studies/het_chem/InitialConditions.csv case_studies/het_chem/mech_used case_studies/het_chem/plot.R case_studies/het_chem/Aerosol.csv case_studies/het_chem/README case_studies/het_chem/Environment.csv '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies/het_chem' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies/chamber_experiment' /usr/bin/install -c -m 644 case_studies/chamber_experiment/BOXMOX.nml case_studies/chamber_experiment/PhotolysisRates.csv case_studies/chamber_experiment/InitialConditions.csv case_studies/chamber_experiment/mech_used case_studies/chamber_experiment/plot.R case_studies/chamber_experiment/README case_studies/chamber_experiment/Environment.csv '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies/chamber_experiment' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies/pbl_diurnal_cycle' /usr/bin/install -c -m 644 case_studies/pbl_diurnal_cycle/BOXMOX.nml case_studies/pbl_diurnal_cycle/PhotolysisRates.csv case_studies/pbl_diurnal_cycle/Background.csv case_studies/pbl_diurnal_cycle/InitialConditions.csv case_studies/pbl_diurnal_cycle/mech_used case_studies/pbl_diurnal_cycle/Deposition.csv case_studies/pbl_diurnal_cycle/Emissions.csv case_studies/pbl_diurnal_cycle/plot.R case_studies/pbl_diurnal_cycle/README case_studies/pbl_diurnal_cycle/Environment.csv '/builds/gitlab/mbees/boxmox/build/share/boxmox/case_studies/pbl_diurnal_cycle' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/build/share/boxmox/drv' /usr/bin/install -c -m 644 drv/general_ddm_ic.f drv/boxmox_adjoint.f90 drv/general.m drv/general_adj.c drv/general_hsv.f90 drv/general.c drv/general_stochastic.f90 drv/none.f90 drv/general_adj.f90 drv/general_soa_check.f90 drv/general_stochastic.c drv/boxmox_lib.f90 drv/boxmox.f90 drv/general.f drv/exact.c drv/general_complete.f90 drv/none.f drv/general_tlm.f90 drv/exact.f drv/none.c drv/general.f90 drv/general_soa.f90 drv/main.c drv/main.f '/builds/gitlab/mbees/boxmox/build/share/boxmox/drv' make install-data-hook make[3]: Entering directory '/builds/gitlab/mbees/boxmox' --- YOU ARE GOOD TO GO --- To use BOXMOX, you need to add the following lines to your .bashrc, .profile (a hidden file in your home directory) or similar, so they are executed upon login: export KPP_HOME=/builds/gitlab/mbees/boxmox/build/share/boxmox export PATH=/builds/gitlab/mbees/boxmox/build/bin:$PATH make[3]: Leaving directory '/builds/gitlab/mbees/boxmox' make[2]: Leaving directory '/builds/gitlab/mbees/boxmox' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox' --- make dist --- make dist-gzip am__post_remove_distdir='@:' make[1]: Entering directory '/builds/gitlab/mbees/boxmox' make distdir-am make[2]: Entering directory '/builds/gitlab/mbees/boxmox' if test -d "boxmox-1.8"; then find "boxmox-1.8" -type d ! -perm -200 -exec chmod u+w {} ';' && rm -rf "boxmox-1.8" || { sleep 5 && rm -rf "boxmox-1.8"; }; else :; fi test -d "boxmox-1.8" || mkdir "boxmox-1.8" (cd src && make top_distdir=../boxmox-1.8 distdir=../boxmox-1.8/src \ am__remove_distdir=: am__skip_length_check=: am__skip_mode_fix=: distdir) make[3]: Entering directory '/builds/gitlab/mbees/boxmox/src' make distdir-am make[4]: Entering directory '/builds/gitlab/mbees/boxmox/src' make[4]: Leaving directory '/builds/gitlab/mbees/boxmox/src' make[3]: Leaving directory '/builds/gitlab/mbees/boxmox/src' make \ top_distdir="boxmox-1.8" distdir="boxmox-1.8" \ dist-hook make[3]: Entering directory '/builds/gitlab/mbees/boxmox' chmod u+w boxmox-1.8/boxmox/wrapper chmod u+w boxmox-1.8/drv/boxmox.f90 chmod u+w boxmox-1.8/drv/boxmox_adjoint.f90 chmod u+w boxmox-1.8/scripts/new_BOXMOX_experiment chmod u+w boxmox-1.8/scripts/new_BOXMOX_experiment_from_example make[3]: Leaving directory '/builds/gitlab/mbees/boxmox' test -n "" \ || find "boxmox-1.8" -type d ! -perm -755 \ -exec chmod u+rwx,go+rx {} \; -o \ ! -type d ! -perm -444 -links 1 -exec chmod a+r {} \; -o \ ! -type d ! -perm -400 -exec chmod a+r {} \; -o \ ! -type d ! -perm -444 -exec /bin/bash /builds/gitlab/mbees/boxmox/install-sh -c -m a+r {} {} \; \ || chmod -R a+r "boxmox-1.8" make[2]: Leaving directory '/builds/gitlab/mbees/boxmox' tardir=boxmox-1.8 && tar --format=posix -chf - "$tardir" | eval GZIP= gzip --best -c >boxmox-1.8.tar.gz make[1]: Leaving directory '/builds/gitlab/mbees/boxmox' if test -d "boxmox-1.8"; then find "boxmox-1.8" -type d ! -perm -200 -exec chmod u+w {} ';' && rm -rf "boxmox-1.8" || { sleep 5 && rm -rf "boxmox-1.8"; }; else :; fi --- make distcheck --- make dist-gzip am__post_remove_distdir='@:' make[1]: Entering directory '/builds/gitlab/mbees/boxmox' make distdir-am make[2]: Entering directory '/builds/gitlab/mbees/boxmox' if test -d "boxmox-1.8"; then find "boxmox-1.8" -type d ! -perm -200 -exec chmod u+w {} ';' && rm -rf "boxmox-1.8" || { sleep 5 && rm -rf "boxmox-1.8"; }; else :; fi test -d "boxmox-1.8" || mkdir "boxmox-1.8" (cd src && make top_distdir=../boxmox-1.8 distdir=../boxmox-1.8/src \ am__remove_distdir=: am__skip_length_check=: am__skip_mode_fix=: distdir) make[3]: Entering directory '/builds/gitlab/mbees/boxmox/src' make distdir-am make[4]: Entering directory '/builds/gitlab/mbees/boxmox/src' make[4]: Leaving directory '/builds/gitlab/mbees/boxmox/src' make[3]: Leaving directory '/builds/gitlab/mbees/boxmox/src' make \ top_distdir="boxmox-1.8" distdir="boxmox-1.8" \ dist-hook make[3]: Entering directory '/builds/gitlab/mbees/boxmox' chmod u+w boxmox-1.8/boxmox/wrapper chmod u+w boxmox-1.8/drv/boxmox.f90 chmod u+w boxmox-1.8/drv/boxmox_adjoint.f90 chmod u+w boxmox-1.8/scripts/new_BOXMOX_experiment chmod u+w boxmox-1.8/scripts/new_BOXMOX_experiment_from_example make[3]: Leaving directory '/builds/gitlab/mbees/boxmox' test -n "" \ || find "boxmox-1.8" -type d ! -perm -755 \ -exec chmod u+rwx,go+rx {} \; -o \ ! -type d ! -perm -444 -links 1 -exec chmod a+r {} \; -o \ ! -type d ! -perm -400 -exec chmod a+r {} \; -o \ ! -type d ! -perm -444 -exec /bin/bash /builds/gitlab/mbees/boxmox/install-sh -c -m a+r {} {} \; \ || chmod -R a+r "boxmox-1.8" make[2]: Leaving directory '/builds/gitlab/mbees/boxmox' tardir=boxmox-1.8 && tar --format=posix -chf - "$tardir" | eval GZIP= gzip --best -c >boxmox-1.8.tar.gz make[1]: Leaving directory '/builds/gitlab/mbees/boxmox' if test -d "boxmox-1.8"; then find "boxmox-1.8" -type d ! -perm -200 -exec chmod u+w {} ';' && rm -rf "boxmox-1.8" || { sleep 5 && rm -rf "boxmox-1.8"; }; else :; fi case 'boxmox-1.8.tar.gz' in \ *.tar.gz*) \ eval GZIP= gzip --best -dc boxmox-1.8.tar.gz | tar -xf - ;;\ *.tar.bz2*) \ bzip2 -dc boxmox-1.8.tar.bz2 | tar -xf - ;;\ *.tar.lz*) \ lzip -dc boxmox-1.8.tar.lz | tar -xf - ;;\ *.tar.xz*) \ xz -dc boxmox-1.8.tar.xz | tar -xf - ;;\ *.tar.Z*) \ uncompress -c boxmox-1.8.tar.Z | tar -xf - ;;\ *.shar.gz*) \ eval GZIP= gzip --best -dc boxmox-1.8.shar.gz | unshar ;;\ *.zip*) \ unzip boxmox-1.8.zip ;;\ *.tar.zst*) \ zstd -dc boxmox-1.8.tar.zst | tar -xf - ;;\ esac chmod -R a-w boxmox-1.8 chmod u+w boxmox-1.8 mkdir boxmox-1.8/_build boxmox-1.8/_build/sub boxmox-1.8/_inst chmod a-w boxmox-1.8 test -d boxmox-1.8/_build || exit 0; \ dc_install_base=`CDPATH="${ZSH_VERSION+.}:" && cd boxmox-1.8/_inst && pwd | sed -e 's,^[^:\\/]:[\\/],/,'` \ && dc_destdir="${TMPDIR-/tmp}/am-dc-$$/" \ && am__cwd=`pwd` \ && CDPATH="${ZSH_VERSION+.}:" && cd boxmox-1.8/_build/sub \ && ../../configure \ \ \ --srcdir=../.. --prefix="$dc_install_base" \ && make \ && make dvi \ && make check \ && make install \ && make installcheck \ && make uninstall \ && make distuninstallcheck_dir="$dc_install_base" \ distuninstallcheck \ && chmod -R a-w "$dc_install_base" \ && ({ \ (cd ../.. && umask 077 && mkdir "$dc_destdir") \ && make DESTDIR="$dc_destdir" install \ && make DESTDIR="$dc_destdir" uninstall \ && make DESTDIR="$dc_destdir" \ distuninstallcheck_dir="$dc_destdir" distuninstallcheck; \ } || { rm -rf "$dc_destdir"; exit 1; }) \ && rm -rf "$dc_destdir" \ && make dist \ && rm -rf boxmox-1.8.tar.gz \ && make distcleancheck \ && cd "$am__cwd" \ || exit 1 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking how to create a pax tar archive... gnutar checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... gcc3 checking for flex... flex checking lex output file root... lex.yy checking lex library... -lfl checking whether yytext is a pointer... yes checking for bison... bison -y checking for a sed that does not truncate output... /usr/bin/sed checking for gfortran... gfortran checking whether we are using the GNU Fortran compiler... yes checking whether gfortran accepts -g... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: executing depfiles commands make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' Making all in src make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make all-am make[3]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT code.o -MD -MP -MF .deps/code.Tpo -c -o code.o ../../../src/code.c ../../../src/code.c: In function 'FlushBuf': ../../../src/code.c:194:3: warning: format not a string literal and no format arguments [-Wformat-security] 194 | fprintf( currentFile, outBuf ); | ^~~~~~~ ../../../src/code.c: In function 'FlushThisBuf': ../../../src/code.c:206:3: warning: format not a string literal and no format arguments [-Wformat-security] 206 | fprintf( currentFile, buf ); | ^~~~~~~ ../../../src/code.c: In function 'IncludeFile': ../../../src/code.c:240:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 240 | fgets( line, MAX_LINE, fp ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../src/code.c: In function 'IncludeCode': ../../../src/code.c:305:3: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] 305 | system( cmd ); | ^~~~~~~~~~~~~ ../../../src/code.c:308:3: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] 308 | system( cmd ); | ^~~~~~~~~~~~~ ../../../src/code.c:262:37: warning: '.f90' directive writing 4 bytes into a region of size between 1 and 200 [-Wformat-overflow=] 262 | case F90_LANG: sprintf( buf, "%s.f90", buf ); | ^~~~ In file included from /usr/include/stdio.h:888, from ../../../src/gdata.h:37, from ../../../src/code.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output between 5 and 204 bytes into a destination of size 200 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ ../../../src/code.c:266:40: warning: '.m' directive writing 2 bytes into a region of size between 1 and 200 [-Wformat-overflow=] 266 | case MATLAB_LANG: sprintf( buf, "%s.m", buf ); | ^~ In file included from /usr/include/stdio.h:888, from ../../../src/gdata.h:37, from ../../../src/code.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output between 3 and 202 bytes into a destination of size 200 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ ../../../src/code.c:264:35: warning: '.c' directive writing 2 bytes into a region of size between 1 and 200 [-Wformat-overflow=] 264 | case C_LANG: sprintf( buf, "%s.c", buf ); | ^~ In file included from /usr/include/stdio.h:888, from ../../../src/gdata.h:37, from ../../../src/code.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output between 3 and 202 bytes into a destination of size 200 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ ../../../src/code.c:260:37: warning: '.f' directive writing 2 bytes into a region of size between 1 and 200 [-Wformat-overflow=] 260 | case F77_LANG: sprintf( buf, "%s.f", buf ); | ^~ In file included from /usr/include/stdio.h:888, from ../../../src/gdata.h:37, from ../../../src/code.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output between 3 and 202 bytes into a destination of size 200 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mv -f .deps/code.Tpo .deps/code.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT code_c.o -MD -MP -MF .deps/code_c.Tpo -c -o code_c.o ../../../src/code_c.c ../../../src/code_c.c: In function 'C_DeclareConstant': ../../../src/code_c.c:371:25: warning: too many arguments for format [-Wformat-extra-args] 371 | printf( "Invalid constant", var->type ); | ^~~~~~~~~~~~~~~~~~ mv -f .deps/code_c.Tpo .deps/code_c.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT code_f77.o -MD -MP -MF .deps/code_f77.Tpo -c -o code_f77.o ../../../src/code_f77.c mv -f .deps/code_f77.Tpo .deps/code_f77.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT code_f90.o -MD -MP -MF .deps/code_f90.Tpo -c -o code_f90.o ../../../src/code_f90.c mv -f .deps/code_f90.Tpo .deps/code_f90.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT code_matlab.o -MD -MP -MF .deps/code_matlab.Tpo -c -o code_matlab.o ../../../src/code_matlab.c mv -f .deps/code_matlab.Tpo .deps/code_matlab.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT debug.o -MD -MP -MF .deps/debug.Tpo -c -o debug.o ../../../src/debug.c mv -f .deps/debug.Tpo .deps/debug.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT gen.o -MD -MP -MF .deps/gen.Tpo -c -o gen.o ../../../src/gen.c ../../../src/gen.c: In function 'EqnStr': ../../../src/gen.c:381:22: warning: zero-length gnu_printf format string [-Wformat-zero-length] 381 | sprintf(s, ""); | ^~ ../../../src/gen.c: In function 'GenerateF90Modules': ../../../src/gen.c:3147:36: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'int' [-Wformat=] 3147 | printf("\n Unrecognized option '%s' in GenerateF90Modules\n", where); | ~^ ~~~~~ | | | | char * int | %d ../../../src/gen.c: In function 'Generate': ../../../src/gen.c:3181:39: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'int' [-Wformat=] 3181 | default: printf("\n Language no '%s' unknown\n",useLang ); | ~^ ~~~~~~~ | | | | char * int | %d ../../../src/gen.c: In function 'ascid': ../../../src/gen.c:110:19: warning: '_dp' directive writing 3 bytes into a region of size between 1 and 40 [-Wformat-overflow=] 110 | sprintf(s, "%s_dp",s); | ^~~ In file included from /usr/include/stdio.h:888, from ../../../src/gdata.h:37, from ../../../src/gen.c:35: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output between 4 and 43 bytes into a destination of size 40 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mv -f .deps/gen.Tpo .deps/gen.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT kpp.o -MD -MP -MF .deps/kpp.Tpo -c -o kpp.o ../../../src/kpp.c ../../../src/kpp.c: In function 'Postprocess': ../../../src/kpp.c:472:5: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] 472 | system( buf ); | ^~~~~~~~~~~~~ mv -f .deps/kpp.Tpo .deps/kpp.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT scanner.o -MD -MP -MF .deps/scanner.Tpo -c -o scanner.o ../../../src/scanner.c ../../../src/scanner.c: In function 'CheckEquation': ../../../src/scanner.c:640:25: warning: '%s' directive writing up to 2999 bytes into a region of size 79 [-Wformat-overflow=] 640 | sprintf(errmsg, "%s %s", errmsg, AtomTable[i].name ); | ^~~~~~~ In file included from /usr/include/stdio.h:888, from ../../../src/gdata.h:37, from ../../../src/scanner.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output 2 or more bytes (assuming 3001) into a destination of size 80 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mv -f .deps/scanner.Tpo .deps/scanner.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT scanutil.o -MD -MP -MF .deps/scanutil.Tpo -c -o scanutil.o ../../../src/scanutil.c ../../../src/scanutil.c: In function 'FileName': ../../../src/scanutil.c:180:32: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=] 180 | sprintf(pathname,"%s/%s",pathname,name); | ^ In file included from /usr/include/stdio.h:888, from ../../../src/scanutil.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output 2 or more bytes (assuming 121) into a destination of size 120 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ ../../../src/scanutil.c:195:27: warning: '/' directive writing 1 byte into a region of size between 0 and 119 [-Wformat-overflow=] 195 | sprintf(pathname, "%s/%s/%s", Home, dir, name); | ^ In file included from /usr/include/stdio.h:888, from ../../../src/scanutil.c:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: '__builtin___sprintf_chk' output 3 or more bytes (assuming 122) into a destination of size 120 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ mv -f .deps/scanutil.Tpo .deps/scanutil.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT yacc.o -MD -MP -MF .deps/yacc.Tpo -c -o yacc.o ../../../src/yacc.c mv -f .deps/yacc.Tpo .deps/yacc.Po gcc -DPACKAGE_NAME=\"boxmox\" -DPACKAGE_TARNAME=\"boxmox\" -DPACKAGE_VERSION=\"1.8\" -DPACKAGE_STRING=\"boxmox\ 1.8\" -DPACKAGE_BUGREPORT=\"christoph.knote@med.uni-augsburg.de\" -DPACKAGE_URL=\"\" -DPACKAGE=\"boxmox\" -DVERSION=\"1.8\" -DYYTEXT_POINTER=1 -I. -I../../../src -g -O2 -MT bison.o -MD -MP -MF .deps/bison.Tpo -c -o bison.o ../../../src/bison.c mv -f .deps/bison.Tpo .deps/bison.Po gcc -g -O2 -o kpp code.o code_c.o code_f77.o code_f90.o code_matlab.o debug.o gen.o kpp.o scanner.o scanutil.o yacc.o bison.o make[3]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' Making dvi in src make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Nothing to be done for 'dvi'. make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[2]: Nothing to be done for 'dvi-am'. make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' Making check in src make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make check-am make[3]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[3]: Nothing to be done for 'check-am'. make[3]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[2]: Nothing to be done for 'check-am'. make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' Making install in src make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make install-am make[3]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[4]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' /usr/bin/install -c kpp '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[3]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[3]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' /usr/bin/install -c ../../scripts/list_BOXMOX_mechanisms ../../scripts/new_BOXMOX_experiment ../../scripts/new_BOXMOX_experiment_from_example ../../scripts/prepare_BOXMOX_mechanism ../../scripts/validate_BOXMOX_installation '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' /usr/bin/mkdir -p /builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/compiled_mechs /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/doc/boxmox' /usr/bin/install -c -m 644 ../../README.md ../../doc/kpp_UserManual.pdf ../../doc/boxmox_UserManual.pdf '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/doc/boxmox' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int' /usr/bin/install -c -m 644 ../../int/runge_kutta_adj.f90 ../../int/atm_lsodes.f ../../int/rosenbrock_adj.c ../../int/gillespie.f90 ../../int/kpp_seulex.f ../../int/rosenbrock_tlm.def ../../int/atm_lsodes.def ../../int/kpp_dvode.f ../../int/kpp_seulex.def ../../int/none.def ../../int/atm_radau5.f ../../int/gillespie.def ../../int/readme ../../int/atm_radau5.def ../../int/runge_kutta_tlm.f90 ../../int/kpp_dvode.def ../../int/sdirk.f90 ../../int/sdirk_adj.c ../../int/rosenbrock.c ../../int/none.f90 ../../int/runge_kutta.m ../../int/runge_kutta_adj.def ../../int/runge_kutta.c ../../int/runge_kutta.def ../../int/kpp_seulex.f90 ../../int/kpp_lsode.def ../../int/sdirk_tlm.f90 ../../int/sdirk.def ../../int/rosenbrock.f ../../int/kpp_lsode.f90 ../../int/gillespie.c ../../int/sdirk.f ../../int/kpp_dvode.f90.save ../../int/tau_leap.f90 ../../int/sdirk_adj.f90 ../../int/rosenbrock.m ../../int/none.f ../../int/kpp_sdirk4.f90 ../../int/rosenbrock_adj.f90 ../../int/sdirk_adj.def '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/models' /usr/bin/install -c -m 644 ../../models/NO_NO2.spc ../../models/RADM2.spc ../../models/MCMv3_3.def ../../models/RACM.eqn ../../models/RACM.spc ../../models/CB05TUCl_NCSU.spc ../../models/NO_NO2.eqn ../../models/RADMKA.spc ../../models/MOZART_4.def ../../models/MOZART_T1.def ../../models/MCMv3_3.spc ../../models/CB05TUCl_EPA.spc ../../models/CB05TUCl_EPA.eqn ../../models/RACM.def ../../models/CB05_CSIRO.spc ../../models/MOZART_4.spc ../../models/CB05TUCl_EPA.def ../../models/SAPRC99.spc ../../models/RADMKA.eqn ../../models/smog.spc ../../models/HETCHEM.def ../../models/RADM2.def ../../models/MOZART_T1.eqn ../../models/atoms_red ../../models/RADMKA.def ../../models/CB05TUCl_NCSU.def ../../models/HETCHEM.spc ../../models/MOZART_4.eqn ../../models/atoms ../../models/RADM2.eqn ../../models/CB05TUCl_NCSU.eqn ../../models/smog.eqn ../../models/CB05_CSIRO.eqn ../../models/smog.def ../../models/NO_NO2.def ../../models/CBMZ.def ../../models/HETCHEM.eqn ../../models/CBMZ.eqn ../../models/MCMv3_3.eqn ../../models/MOZART_T1.spc '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/models' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/util' /usr/bin/install -c -m 644 ../../util/UpdateSun.c ../../util/UserRateLaws.f90 ../../util/UpdateSun.f90 ../../util/Mex_Jac_SP.f90 ../../util/mex.f ../../util/dFun_dRcoeff.c ../../util/blas.f ../../util/ncar.c ../../util/UpdateSun.f ../../util/sutil.c ../../util/Template_Fun_Chem.m ../../util/Mex_Fun.f ../../util/sparsity_plots.m ../../util/sutil.f ../../util/UserRateLaws_FcnHeader.f ../../util/Mex_Jac_SP.f ../../util/UserRateLaws_BOXMOX.f90 ../../util/Mex_Hessian.f ../../util/ncar.h ../../util/Makefile.c ../../util/Makefile.f90 ../../util/UserRateLaws.f ../../util/Mex_Hessian.f90 ../../util/Mex_Jac_SP.c ../../util/Mex_Fun.f90 ../../util/dFun_dRcoeff.m ../../util/dJac_dRcoeff.f90 ../../util/mex.c ../../util/util.f ../../util/util.c ../../util/util.f90 ../../util/Makefile.f ../../util/Template_Jac_Chem.m ../../util/UserRateLaws.m ../../util/dFun_dRcoeff.f90 ../../util/Mex_Hessian.c ../../util/dJac_dRcoeff.m ../../util/sutil.f90 ../../util/blas.f90 ../../util/dJac_dRcoeff.f '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/util' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/DVODE' /usr/bin/install -c -m 644 ../../int/DVODE/dvode_f90_m.f90 ../../int/DVODE/stiffoptions.dat ../../int/DVODE/example1.f90 ../../int/DVODE/dvode_f90_m.mod ../../int/DVODE/NonstiffOptionsReadme.txt ../../int/DVODE/a.out ../../int/DVODE/example1.mod ../../int/DVODE/nonstiffoptions.f90 ../../int/DVODE/test.f90 ../../int/DVODE/stiffoptions.f90 ../../int/DVODE/ChangeRecord.txt ../../int/DVODE/example2.f90 ../../int/DVODE/StiffOptionsReadme.txt ../../int/DVODE/quickstart.pdf ../../int/DVODE/stiffset.mod ../../int/DVODE/example1.dat '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/DVODE' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/dilution' /usr/bin/install -c -m 644 ../../case_studies/dilution/BOXMOX.nml ../../case_studies/dilution/PhotolysisRates.csv ../../case_studies/dilution/Background.csv ../../case_studies/dilution/InitialConditions.csv ../../case_studies/dilution/mech_used ../../case_studies/dilution/plot.R ../../case_studies/dilution/README ../../case_studies/dilution/Environment.csv '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/dilution' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/util' /usr/bin/install -c -m 644 ../../util/blas.c ../../util/dJac_dRcoeff.c ../../util/Mex_Fun.c ../../util/dFun_dRcoeff.f ../../util/tag2num.f90 ../../util/util.m ../../util/UpdateSun.m ../../util/UserRateLaws.c '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/util' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/models' /usr/bin/install -c -m 644 ../../models/CBMZ.spc ../../models/SAPRC99.def ../../models/SAPRC99.eqn ../../models/CB05_CSIRO.def '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/models' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/oldies' /usr/bin/install -c -m 644 ../../int/oldies/ros3.f ../../int/oldies/qssafix.f ../../int/oldies/qssa.f ../../int/oldies/ros4_ddm.f ../../int/oldies/kpp_ros4.f ../../int/oldies/ros4.def ../../int/oldies/ros3_ddm.def ../../int/oldies/ros2_ddm.f ../../int/oldies/ros2_cts_adj.f ../../int/oldies/rodas3.f ../../int/oldies/qssa1.f ../../int/oldies/twostepj.f ../../int/oldies/ros1.f ../../int/oldies/ros2.f ../../int/oldies/kpp_rodas.f ../../int/oldies/rodas3.def ../../int/oldies/qssafix.def ../../int/oldies/ros1.def ../../int/oldies/exqssa.def ../../int/oldies/ros1_ddm.def ../../int/oldies/exqssa.c ../../int/oldies/ros3.def ../../int/oldies/ros2.f90 ../../int/oldies/rodas3_ddm.f ../../int/oldies/ros3.c ../../int/oldies/qssa.def ../../int/oldies/ros1_ddm.f ../../int/oldies/ros3_ddm.f ../../int/oldies/kpp_ros4.def ../../int/oldies/ros2_ddm.def ../../int/oldies/ros2.c ../../int/oldies/rodas3.c ../../int/oldies/ros4_ddm.def ../../int/oldies/kpp_rodas.def ../../int/oldies/exqssa.f ../../int/oldies/twostepj.def ../../int/oldies/ros4.f ../../int/oldies/rodas3_ddm.def ../../int/oldies/ros2.def '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/oldies' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies' /usr/bin/install -c -m 644 ../../case_studies/BOXMOX.nml '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/examples' /usr/bin/install -c -m 644 ../../examples/CB05TUCl_NCSU.kpp ../../examples/RADM2_wrfkpp.equiv ../../examples/smog.kpp ../../examples/MOZART_T1.kpp ../../examples/NO_NO2.kpp ../../examples/HETCHEM.kpp ../../examples/MCMv3_3.kpp ../../examples/CBMZ_wrfkpp.equiv ../../examples/CB05_CSIRO.kpp ../../examples/MOZART_T1_wrfkpp.equiv ../../examples/MOZART_4_wrfkpp.equiv ../../examples/RADM2.kpp ../../examples/SAPRC99.kpp ../../examples/MOZART_4.kpp ../../examples/CB05TUCl_EPA.kpp ../../examples/CBMZ.kpp ../../examples/RACM_wrfkpp.equiv ../../examples/RADMKA.kpp ../../examples/RACM.kpp ../../examples/SAPRC99_wrfkpp.equiv '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/examples' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/boxmox' /usr/bin/install -c -m 644 ../../boxmox/wrapper ../../boxmox/UserManual.tex '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/boxmox' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int' /usr/bin/install -c -m 644 ../../int/tau_leap.def ../../int/kpp_dvode.f90 ../../int/rosenbrock_adj.def ../../int/atm_odessa_ddm.f ../../int/atm_odessa_ddm.def ../../int/kpp_odessa_ddm.f ../../int/kpp_sdirk4.def ../../int/kpp_sdirk4.f ../../int/none.c ../../int/rosenbrock_tlm.f90 ../../int/none.m ../../int/rosenbrock.def ../../int/runge_kutta.f90 ../../int/rosenbrock.f90 ../../int/sdirk_tlm.def ../../int/sdirk.m ../../int/kpp_odessa_ddm.def ../../int/kpp_radau5.f90 ../../int/sdirk.c ../../int/runge_kutta_tlm.def ../../int/kpp_radau5.def '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/user_contributed' /usr/bin/install -c -m 644 ../../int/user_contributed/readme ../../int/user_contributed/ros2_manual.f90 ../../int/user_contributed/ros2_manual.def '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/user_contributed' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/urban_plume' /usr/bin/install -c -m 644 ../../case_studies/urban_plume/BOXMOX.nml ../../case_studies/urban_plume/PhotolysisRates.csv ../../case_studies/urban_plume/InitialConditions.csv ../../case_studies/urban_plume/mech_used ../../case_studies/urban_plume/Deposition.csv ../../case_studies/urban_plume/Emissions.csv ../../case_studies/urban_plume/plot.R ../../case_studies/urban_plume/README ../../case_studies/urban_plume/Environment.csv '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/urban_plume' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/het_chem' /usr/bin/install -c -m 644 ../../case_studies/het_chem/BOXMOX.nml ../../case_studies/het_chem/InitialConditions.csv ../../case_studies/het_chem/mech_used ../../case_studies/het_chem/plot.R ../../case_studies/het_chem/Aerosol.csv ../../case_studies/het_chem/README ../../case_studies/het_chem/Environment.csv '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/het_chem' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/chamber_experiment' /usr/bin/install -c -m 644 ../../case_studies/chamber_experiment/BOXMOX.nml ../../case_studies/chamber_experiment/PhotolysisRates.csv ../../case_studies/chamber_experiment/InitialConditions.csv ../../case_studies/chamber_experiment/mech_used ../../case_studies/chamber_experiment/plot.R ../../case_studies/chamber_experiment/README ../../case_studies/chamber_experiment/Environment.csv '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/chamber_experiment' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/pbl_diurnal_cycle' /usr/bin/install -c -m 644 ../../case_studies/pbl_diurnal_cycle/BOXMOX.nml ../../case_studies/pbl_diurnal_cycle/PhotolysisRates.csv ../../case_studies/pbl_diurnal_cycle/Background.csv ../../case_studies/pbl_diurnal_cycle/InitialConditions.csv ../../case_studies/pbl_diurnal_cycle/mech_used ../../case_studies/pbl_diurnal_cycle/Deposition.csv ../../case_studies/pbl_diurnal_cycle/Emissions.csv ../../case_studies/pbl_diurnal_cycle/plot.R ../../case_studies/pbl_diurnal_cycle/README ../../case_studies/pbl_diurnal_cycle/Environment.csv '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/pbl_diurnal_cycle' /usr/bin/mkdir -p '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/drv' /usr/bin/install -c -m 644 ../../drv/general_ddm_ic.f ../../drv/boxmox_adjoint.f90 ../../drv/general.m ../../drv/general_adj.c ../../drv/general_hsv.f90 ../../drv/general.c ../../drv/general_stochastic.f90 ../../drv/none.f90 ../../drv/general_adj.f90 ../../drv/general_soa_check.f90 ../../drv/general_stochastic.c ../../drv/boxmox_lib.f90 ../../drv/boxmox.f90 ../../drv/general.f ../../drv/exact.c ../../drv/general_complete.f90 ../../drv/none.f ../../drv/general_tlm.f90 ../../drv/exact.f ../../drv/none.c ../../drv/general.f90 ../../drv/general_soa.f90 ../../drv/main.c ../../drv/main.f '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/drv' make install-data-hook make[4]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' --- YOU ARE GOOD TO GO --- To use BOXMOX, you need to add the following lines to your .bashrc, .profile (a hidden file in your home directory) or similar, so they are executed upon login: export KPP_HOME=/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox export PATH=/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin:$PATH make[4]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[3]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' Making installcheck in src make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Nothing to be done for 'installcheck'. make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[2]: Nothing to be done for 'installcheck-am'. make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' Making uninstall in src make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' ( cd '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' && rm -f kpp ) make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' ( cd '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' && rm -f list_BOXMOX_mechanisms new_BOXMOX_experiment new_BOXMOX_experiment_from_example prepare_BOXMOX_mechanism validate_BOXMOX_installation ) ( cd '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/doc/boxmox' && rm -f README.md kpp_UserManual.pdf boxmox_UserManual.pdf ) rmdir /builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/compiled_mechs 2>/dev/null || : ( cd '/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox' && rm -f boxmox/wrapper boxmox/UserManual.tex drv/general_ddm_ic.f drv/boxmox_adjoint.f90 drv/general.m drv/general_adj.c drv/general_hsv.f90 drv/general.c drv/general_stochastic.f90 drv/none.f90 drv/general_adj.f90 drv/general_soa_check.f90 drv/general_stochastic.c drv/boxmox_lib.f90 drv/boxmox.f90 drv/general.f drv/exact.c drv/general_complete.f90 drv/none.f drv/general_tlm.f90 drv/exact.f drv/none.c drv/general.f90 drv/general_soa.f90 drv/main.c drv/main.f examples/CB05TUCl_NCSU.kpp examples/RADM2_wrfkpp.equiv examples/smog.kpp examples/MOZART_T1.kpp examples/NO_NO2.kpp examples/HETCHEM.kpp examples/MCMv3_3.kpp examples/CBMZ_wrfkpp.equiv examples/CB05_CSIRO.kpp examples/MOZART_T1_wrfkpp.equiv examples/MOZART_4_wrfkpp.equiv examples/RADM2.kpp examples/SAPRC99.kpp examples/MOZART_4.kpp examples/CB05TUCl_EPA.kpp examples/CBMZ.kpp examples/RACM_wrfkpp.equiv examples/RADMKA.kpp examples/RACM.kpp examples/SAPRC99_wrfkpp.equiv case_studies/BOXMOX.nml case_studies/chamber_experiment/BOXMOX.nml case_studies/chamber_experiment/PhotolysisRates.csv case_studies/chamber_experiment/InitialConditions.csv case_studies/chamber_experiment/mech_used case_studies/chamber_experiment/plot.R case_studies/chamber_experiment/README case_studies/chamber_experiment/Environment.csv case_studies/het_chem/BOXMOX.nml case_studies/het_chem/InitialConditions.csv case_studies/het_chem/mech_used case_studies/het_chem/plot.R case_studies/het_chem/Aerosol.csv case_studies/het_chem/README case_studies/het_chem/Environment.csv case_studies/urban_plume/BOXMOX.nml case_studies/urban_plume/PhotolysisRates.csv case_studies/urban_plume/InitialConditions.csv case_studies/urban_plume/mech_used case_studies/urban_plume/Deposition.csv case_studies/urban_plume/Emissions.csv case_studies/urban_plume/plot.R case_studies/urban_plume/README case_studies/urban_plume/Environment.csv case_studies/dilution/BOXMOX.nml case_studies/dilution/PhotolysisRates.csv case_studies/dilution/Background.csv case_studies/dilution/InitialConditions.csv case_studies/dilution/mech_used case_studies/dilution/plot.R case_studies/dilution/README case_studies/dilution/Environment.csv case_studies/pbl_diurnal_cycle/BOXMOX.nml case_studies/pbl_diurnal_cycle/PhotolysisRates.csv case_studies/pbl_diurnal_cycle/Background.csv case_studies/pbl_diurnal_cycle/InitialConditions.csv case_studies/pbl_diurnal_cycle/mech_used case_studies/pbl_diurnal_cycle/Deposition.csv case_studies/pbl_diurnal_cycle/Emissions.csv case_studies/pbl_diurnal_cycle/plot.R case_studies/pbl_diurnal_cycle/README case_studies/pbl_diurnal_cycle/Environment.csv int/runge_kutta_adj.f90 int/atm_lsodes.f int/rosenbrock_adj.c int/gillespie.f90 int/kpp_seulex.f int/rosenbrock_tlm.def int/atm_lsodes.def int/kpp_dvode.f int/kpp_seulex.def int/none.def int/atm_radau5.f int/gillespie.def int/readme int/atm_radau5.def int/runge_kutta_tlm.f90 int/kpp_dvode.def int/sdirk.f90 int/sdirk_adj.c int/rosenbrock.c int/none.f90 int/runge_kutta.m int/runge_kutta_adj.def int/runge_kutta.c int/runge_kutta.def int/kpp_seulex.f90 int/kpp_lsode.def int/sdirk_tlm.f90 int/sdirk.def int/rosenbrock.f int/kpp_lsode.f90 int/gillespie.c int/sdirk.f int/kpp_dvode.f90.save int/tau_leap.f90 int/sdirk_adj.f90 int/rosenbrock.m int/none.f int/kpp_sdirk4.f90 int/rosenbrock_adj.f90 int/sdirk_adj.def int/tau_leap.def int/oldies/ros3.f int/oldies/qssafix.f int/oldies/qssa.f int/oldies/ros4_ddm.f int/oldies/kpp_ros4.f int/oldies/ros4.def int/oldies/ros3_ddm.def int/oldies/ros2_ddm.f int/oldies/ros2_cts_adj.f int/oldies/rodas3.f int/oldies/qssa1.f int/oldies/twostepj.f int/oldies/ros1.f int/oldies/ros2.f int/oldies/kpp_rodas.f int/oldies/rodas3.def int/oldies/qssafix.def int/oldies/ros1.def int/oldies/exqssa.def int/oldies/ros1_ddm.def int/oldies/exqssa.c int/oldies/ros3.def int/oldies/ros2.f90 int/oldies/rodas3_ddm.f int/oldies/ros3.c int/oldies/qssa.def int/oldies/ros1_ddm.f int/oldies/ros3_ddm.f int/oldies/kpp_ros4.def int/oldies/ros2_ddm.def int/oldies/ros2.c int/oldies/rodas3.c int/oldies/ros4_ddm.def int/oldies/kpp_rodas.def int/oldies/exqssa.f int/oldies/twostepj.def int/oldies/ros4.f int/oldies/rodas3_ddm.def int/oldies/ros2.def int/kpp_dvode.f90 int/rosenbrock_adj.def int/user_contributed/readme int/user_contributed/ros2_manual.f90 int/user_contributed/ros2_manual.def int/atm_odessa_ddm.f int/atm_odessa_ddm.def int/DVODE/dvode_f90_m.f90 int/DVODE/stiffoptions.dat int/DVODE/example1.f90 int/DVODE/dvode_f90_m.mod int/DVODE/NonstiffOptionsReadme.txt int/DVODE/a.out int/DVODE/example1.mod int/DVODE/nonstiffoptions.f90 int/DVODE/test.f90 int/DVODE/stiffoptions.f90 int/DVODE/ChangeRecord.txt int/DVODE/example2.f90 int/DVODE/StiffOptionsReadme.txt int/DVODE/quickstart.pdf int/DVODE/stiffset.mod int/DVODE/example1.dat int/kpp_odessa_ddm.f int/kpp_sdirk4.def int/kpp_sdirk4.f int/none.c int/rosenbrock_tlm.f90 int/none.m int/rosenbrock.def int/runge_kutta.f90 int/rosenbrock.f90 int/sdirk_tlm.def int/sdirk.m int/kpp_odessa_ddm.def int/kpp_radau5.f90 int/sdirk.c int/runge_kutta_tlm.def int/kpp_radau5.def models/NO_NO2.spc models/RADM2.spc models/MCMv3_3.def models/RACM.eqn models/RACM.spc models/CB05TUCl_NCSU.spc models/NO_NO2.eqn models/RADMKA.spc models/MOZART_4.def models/MOZART_T1.def models/MCMv3_3.spc models/CB05TUCl_EPA.spc models/CB05TUCl_EPA.eqn models/RACM.def models/CB05_CSIRO.spc models/MOZART_4.spc models/CB05TUCl_EPA.def models/SAPRC99.spc models/RADMKA.eqn models/smog.spc models/HETCHEM.def models/RADM2.def models/MOZART_T1.eqn models/atoms_red models/RADMKA.def models/CB05TUCl_NCSU.def models/HETCHEM.spc models/MOZART_4.eqn models/atoms models/RADM2.eqn models/CB05TUCl_NCSU.eqn models/smog.eqn models/CB05_CSIRO.eqn models/smog.def models/NO_NO2.def models/CBMZ.def models/HETCHEM.eqn models/CBMZ.eqn models/MCMv3_3.eqn models/MOZART_T1.spc models/CBMZ.spc models/SAPRC99.def models/SAPRC99.eqn models/CB05_CSIRO.def util/UpdateSun.c util/UserRateLaws.f90 util/UpdateSun.f90 util/Mex_Jac_SP.f90 util/mex.f util/dFun_dRcoeff.c util/blas.f util/ncar.c util/UpdateSun.f util/sutil.c util/Template_Fun_Chem.m util/Mex_Fun.f util/sparsity_plots.m util/sutil.f util/UserRateLaws_FcnHeader.f util/Mex_Jac_SP.f util/UserRateLaws_BOXMOX.f90 util/Mex_Hessian.f util/ncar.h util/Makefile.c util/Makefile.f90 util/UserRateLaws.f util/Mex_Hessian.f90 util/Mex_Jac_SP.c util/Mex_Fun.f90 util/dFun_dRcoeff.m util/dJac_dRcoeff.f90 util/mex.c util/util.f util/util.c util/util.f90 util/Makefile.f util/Template_Jac_Chem.m util/UserRateLaws.m util/dFun_dRcoeff.f90 util/Mex_Hessian.c util/dJac_dRcoeff.m util/sutil.f90 util/blas.f90 util/dJac_dRcoeff.f util/blas.c util/dJac_dRcoeff.c util/Mex_Fun.c util/dFun_dRcoeff.f util/tag2num.f90 util/util.m util/UpdateSun.m util/UserRateLaws.c ) make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' Making install in src make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make install-am make[3]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[4]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' /usr/bin/install -c kpp '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[3]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[3]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' /usr/bin/install -c ../../scripts/list_BOXMOX_mechanisms ../../scripts/new_BOXMOX_experiment ../../scripts/new_BOXMOX_experiment_from_example ../../scripts/prepare_BOXMOX_mechanism ../../scripts/validate_BOXMOX_installation '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' /usr/bin/mkdir -p /tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/compiled_mechs /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/doc/boxmox' /usr/bin/install -c -m 644 ../../README.md ../../doc/kpp_UserManual.pdf ../../doc/boxmox_UserManual.pdf '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/doc/boxmox' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int' /usr/bin/install -c -m 644 ../../int/runge_kutta_adj.f90 ../../int/atm_lsodes.f ../../int/rosenbrock_adj.c ../../int/gillespie.f90 ../../int/kpp_seulex.f ../../int/rosenbrock_tlm.def ../../int/atm_lsodes.def ../../int/kpp_dvode.f ../../int/kpp_seulex.def ../../int/none.def ../../int/atm_radau5.f ../../int/gillespie.def ../../int/readme ../../int/atm_radau5.def ../../int/runge_kutta_tlm.f90 ../../int/kpp_dvode.def ../../int/sdirk.f90 ../../int/sdirk_adj.c ../../int/rosenbrock.c ../../int/none.f90 ../../int/runge_kutta.m ../../int/runge_kutta_adj.def ../../int/runge_kutta.c ../../int/runge_kutta.def ../../int/kpp_seulex.f90 ../../int/kpp_lsode.def ../../int/sdirk_tlm.f90 ../../int/sdirk.def ../../int/rosenbrock.f ../../int/kpp_lsode.f90 ../../int/gillespie.c ../../int/sdirk.f ../../int/kpp_dvode.f90.save ../../int/tau_leap.f90 ../../int/sdirk_adj.f90 ../../int/rosenbrock.m ../../int/none.f ../../int/kpp_sdirk4.f90 ../../int/rosenbrock_adj.f90 ../../int/sdirk_adj.def '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/models' /usr/bin/install -c -m 644 ../../models/NO_NO2.spc ../../models/RADM2.spc ../../models/MCMv3_3.def ../../models/RACM.eqn ../../models/RACM.spc ../../models/CB05TUCl_NCSU.spc ../../models/NO_NO2.eqn ../../models/RADMKA.spc ../../models/MOZART_4.def ../../models/MOZART_T1.def ../../models/MCMv3_3.spc ../../models/CB05TUCl_EPA.spc ../../models/CB05TUCl_EPA.eqn ../../models/RACM.def ../../models/CB05_CSIRO.spc ../../models/MOZART_4.spc ../../models/CB05TUCl_EPA.def ../../models/SAPRC99.spc ../../models/RADMKA.eqn ../../models/smog.spc ../../models/HETCHEM.def ../../models/RADM2.def ../../models/MOZART_T1.eqn ../../models/atoms_red ../../models/RADMKA.def ../../models/CB05TUCl_NCSU.def ../../models/HETCHEM.spc ../../models/MOZART_4.eqn ../../models/atoms ../../models/RADM2.eqn ../../models/CB05TUCl_NCSU.eqn ../../models/smog.eqn ../../models/CB05_CSIRO.eqn ../../models/smog.def ../../models/NO_NO2.def ../../models/CBMZ.def ../../models/HETCHEM.eqn ../../models/CBMZ.eqn ../../models/MCMv3_3.eqn ../../models/MOZART_T1.spc '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/models' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/util' /usr/bin/install -c -m 644 ../../util/UpdateSun.c ../../util/UserRateLaws.f90 ../../util/UpdateSun.f90 ../../util/Mex_Jac_SP.f90 ../../util/mex.f ../../util/dFun_dRcoeff.c ../../util/blas.f ../../util/ncar.c ../../util/UpdateSun.f ../../util/sutil.c ../../util/Template_Fun_Chem.m ../../util/Mex_Fun.f ../../util/sparsity_plots.m ../../util/sutil.f ../../util/UserRateLaws_FcnHeader.f ../../util/Mex_Jac_SP.f ../../util/UserRateLaws_BOXMOX.f90 ../../util/Mex_Hessian.f ../../util/ncar.h ../../util/Makefile.c ../../util/Makefile.f90 ../../util/UserRateLaws.f ../../util/Mex_Hessian.f90 ../../util/Mex_Jac_SP.c ../../util/Mex_Fun.f90 ../../util/dFun_dRcoeff.m ../../util/dJac_dRcoeff.f90 ../../util/mex.c ../../util/util.f ../../util/util.c ../../util/util.f90 ../../util/Makefile.f ../../util/Template_Jac_Chem.m ../../util/UserRateLaws.m ../../util/dFun_dRcoeff.f90 ../../util/Mex_Hessian.c ../../util/dJac_dRcoeff.m ../../util/sutil.f90 ../../util/blas.f90 ../../util/dJac_dRcoeff.f '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/util' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/DVODE' /usr/bin/install -c -m 644 ../../int/DVODE/dvode_f90_m.f90 ../../int/DVODE/stiffoptions.dat ../../int/DVODE/example1.f90 ../../int/DVODE/dvode_f90_m.mod ../../int/DVODE/NonstiffOptionsReadme.txt ../../int/DVODE/a.out ../../int/DVODE/example1.mod ../../int/DVODE/nonstiffoptions.f90 ../../int/DVODE/test.f90 ../../int/DVODE/stiffoptions.f90 ../../int/DVODE/ChangeRecord.txt ../../int/DVODE/example2.f90 ../../int/DVODE/StiffOptionsReadme.txt ../../int/DVODE/quickstart.pdf ../../int/DVODE/stiffset.mod ../../int/DVODE/example1.dat '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/DVODE' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/dilution' /usr/bin/install -c -m 644 ../../case_studies/dilution/BOXMOX.nml ../../case_studies/dilution/PhotolysisRates.csv ../../case_studies/dilution/Background.csv ../../case_studies/dilution/InitialConditions.csv ../../case_studies/dilution/mech_used ../../case_studies/dilution/plot.R ../../case_studies/dilution/README ../../case_studies/dilution/Environment.csv '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/dilution' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/util' /usr/bin/install -c -m 644 ../../util/blas.c ../../util/dJac_dRcoeff.c ../../util/Mex_Fun.c ../../util/dFun_dRcoeff.f ../../util/tag2num.f90 ../../util/util.m ../../util/UpdateSun.m ../../util/UserRateLaws.c '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/util' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/models' /usr/bin/install -c -m 644 ../../models/CBMZ.spc ../../models/SAPRC99.def ../../models/SAPRC99.eqn ../../models/CB05_CSIRO.def '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/models' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/oldies' /usr/bin/install -c -m 644 ../../int/oldies/ros3.f ../../int/oldies/qssafix.f ../../int/oldies/qssa.f ../../int/oldies/ros4_ddm.f ../../int/oldies/kpp_ros4.f ../../int/oldies/ros4.def ../../int/oldies/ros3_ddm.def ../../int/oldies/ros2_ddm.f ../../int/oldies/ros2_cts_adj.f ../../int/oldies/rodas3.f ../../int/oldies/qssa1.f ../../int/oldies/twostepj.f ../../int/oldies/ros1.f ../../int/oldies/ros2.f ../../int/oldies/kpp_rodas.f ../../int/oldies/rodas3.def ../../int/oldies/qssafix.def ../../int/oldies/ros1.def ../../int/oldies/exqssa.def ../../int/oldies/ros1_ddm.def ../../int/oldies/exqssa.c ../../int/oldies/ros3.def ../../int/oldies/ros2.f90 ../../int/oldies/rodas3_ddm.f ../../int/oldies/ros3.c ../../int/oldies/qssa.def ../../int/oldies/ros1_ddm.f ../../int/oldies/ros3_ddm.f ../../int/oldies/kpp_ros4.def ../../int/oldies/ros2_ddm.def ../../int/oldies/ros2.c ../../int/oldies/rodas3.c ../../int/oldies/ros4_ddm.def ../../int/oldies/kpp_rodas.def ../../int/oldies/exqssa.f ../../int/oldies/twostepj.def ../../int/oldies/ros4.f ../../int/oldies/rodas3_ddm.def ../../int/oldies/ros2.def '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/oldies' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies' /usr/bin/install -c -m 644 ../../case_studies/BOXMOX.nml '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/examples' /usr/bin/install -c -m 644 ../../examples/CB05TUCl_NCSU.kpp ../../examples/RADM2_wrfkpp.equiv ../../examples/smog.kpp ../../examples/MOZART_T1.kpp ../../examples/NO_NO2.kpp ../../examples/HETCHEM.kpp ../../examples/MCMv3_3.kpp ../../examples/CBMZ_wrfkpp.equiv ../../examples/CB05_CSIRO.kpp ../../examples/MOZART_T1_wrfkpp.equiv ../../examples/MOZART_4_wrfkpp.equiv ../../examples/RADM2.kpp ../../examples/SAPRC99.kpp ../../examples/MOZART_4.kpp ../../examples/CB05TUCl_EPA.kpp ../../examples/CBMZ.kpp ../../examples/RACM_wrfkpp.equiv ../../examples/RADMKA.kpp ../../examples/RACM.kpp ../../examples/SAPRC99_wrfkpp.equiv '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/examples' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/boxmox' /usr/bin/install -c -m 644 ../../boxmox/wrapper ../../boxmox/UserManual.tex '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/boxmox' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int' /usr/bin/install -c -m 644 ../../int/tau_leap.def ../../int/kpp_dvode.f90 ../../int/rosenbrock_adj.def ../../int/atm_odessa_ddm.f ../../int/atm_odessa_ddm.def ../../int/kpp_odessa_ddm.f ../../int/kpp_sdirk4.def ../../int/kpp_sdirk4.f ../../int/none.c ../../int/rosenbrock_tlm.f90 ../../int/none.m ../../int/rosenbrock.def ../../int/runge_kutta.f90 ../../int/rosenbrock.f90 ../../int/sdirk_tlm.def ../../int/sdirk.m ../../int/kpp_odessa_ddm.def ../../int/kpp_radau5.f90 ../../int/sdirk.c ../../int/runge_kutta_tlm.def ../../int/kpp_radau5.def '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/user_contributed' /usr/bin/install -c -m 644 ../../int/user_contributed/readme ../../int/user_contributed/ros2_manual.f90 ../../int/user_contributed/ros2_manual.def '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/int/user_contributed' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/urban_plume' /usr/bin/install -c -m 644 ../../case_studies/urban_plume/BOXMOX.nml ../../case_studies/urban_plume/PhotolysisRates.csv ../../case_studies/urban_plume/InitialConditions.csv ../../case_studies/urban_plume/mech_used ../../case_studies/urban_plume/Deposition.csv ../../case_studies/urban_plume/Emissions.csv ../../case_studies/urban_plume/plot.R ../../case_studies/urban_plume/README ../../case_studies/urban_plume/Environment.csv '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/urban_plume' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/het_chem' /usr/bin/install -c -m 644 ../../case_studies/het_chem/BOXMOX.nml ../../case_studies/het_chem/InitialConditions.csv ../../case_studies/het_chem/mech_used ../../case_studies/het_chem/plot.R ../../case_studies/het_chem/Aerosol.csv ../../case_studies/het_chem/README ../../case_studies/het_chem/Environment.csv '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/het_chem' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/chamber_experiment' /usr/bin/install -c -m 644 ../../case_studies/chamber_experiment/BOXMOX.nml ../../case_studies/chamber_experiment/PhotolysisRates.csv ../../case_studies/chamber_experiment/InitialConditions.csv ../../case_studies/chamber_experiment/mech_used ../../case_studies/chamber_experiment/plot.R ../../case_studies/chamber_experiment/README ../../case_studies/chamber_experiment/Environment.csv '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/chamber_experiment' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/pbl_diurnal_cycle' /usr/bin/install -c -m 644 ../../case_studies/pbl_diurnal_cycle/BOXMOX.nml ../../case_studies/pbl_diurnal_cycle/PhotolysisRates.csv ../../case_studies/pbl_diurnal_cycle/Background.csv ../../case_studies/pbl_diurnal_cycle/InitialConditions.csv ../../case_studies/pbl_diurnal_cycle/mech_used ../../case_studies/pbl_diurnal_cycle/Deposition.csv ../../case_studies/pbl_diurnal_cycle/Emissions.csv ../../case_studies/pbl_diurnal_cycle/plot.R ../../case_studies/pbl_diurnal_cycle/README ../../case_studies/pbl_diurnal_cycle/Environment.csv '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/case_studies/pbl_diurnal_cycle' /usr/bin/mkdir -p '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/drv' /usr/bin/install -c -m 644 ../../drv/general_ddm_ic.f ../../drv/boxmox_adjoint.f90 ../../drv/general.m ../../drv/general_adj.c ../../drv/general_hsv.f90 ../../drv/general.c ../../drv/general_stochastic.f90 ../../drv/none.f90 ../../drv/general_adj.f90 ../../drv/general_soa_check.f90 ../../drv/general_stochastic.c ../../drv/boxmox_lib.f90 ../../drv/boxmox.f90 ../../drv/general.f ../../drv/exact.c ../../drv/general_complete.f90 ../../drv/none.f ../../drv/general_tlm.f90 ../../drv/exact.f ../../drv/none.c ../../drv/general.f90 ../../drv/general_soa.f90 ../../drv/main.c ../../drv/main.f '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/drv' make install-data-hook make[4]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' --- YOU ARE GOOD TO GO --- To use BOXMOX, you need to add the following lines to your .bashrc, .profile (a hidden file in your home directory) or similar, so they are executed upon login: export KPP_HOME=/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox export PATH=/builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin:$PATH make[4]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[3]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' Making uninstall in src make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' ( cd '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' && rm -f kpp ) make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' ( cd '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/bin' && rm -f list_BOXMOX_mechanisms new_BOXMOX_experiment new_BOXMOX_experiment_from_example prepare_BOXMOX_mechanism validate_BOXMOX_installation ) ( cd '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/doc/boxmox' && rm -f README.md kpp_UserManual.pdf boxmox_UserManual.pdf ) rmdir /tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox/compiled_mechs 2>/dev/null || : ( cd '/tmp/am-dc-9861//builds/gitlab/mbees/boxmox/boxmox-1.8/_inst/share/boxmox' && rm -f boxmox/wrapper boxmox/UserManual.tex drv/general_ddm_ic.f drv/boxmox_adjoint.f90 drv/general.m drv/general_adj.c drv/general_hsv.f90 drv/general.c drv/general_stochastic.f90 drv/none.f90 drv/general_adj.f90 drv/general_soa_check.f90 drv/general_stochastic.c drv/boxmox_lib.f90 drv/boxmox.f90 drv/general.f drv/exact.c drv/general_complete.f90 drv/none.f drv/general_tlm.f90 drv/exact.f drv/none.c drv/general.f90 drv/general_soa.f90 drv/main.c drv/main.f examples/CB05TUCl_NCSU.kpp examples/RADM2_wrfkpp.equiv examples/smog.kpp examples/MOZART_T1.kpp examples/NO_NO2.kpp examples/HETCHEM.kpp examples/MCMv3_3.kpp examples/CBMZ_wrfkpp.equiv examples/CB05_CSIRO.kpp examples/MOZART_T1_wrfkpp.equiv examples/MOZART_4_wrfkpp.equiv examples/RADM2.kpp examples/SAPRC99.kpp examples/MOZART_4.kpp examples/CB05TUCl_EPA.kpp examples/CBMZ.kpp examples/RACM_wrfkpp.equiv examples/RADMKA.kpp examples/RACM.kpp examples/SAPRC99_wrfkpp.equiv case_studies/BOXMOX.nml case_studies/chamber_experiment/BOXMOX.nml case_studies/chamber_experiment/PhotolysisRates.csv case_studies/chamber_experiment/InitialConditions.csv case_studies/chamber_experiment/mech_used case_studies/chamber_experiment/plot.R case_studies/chamber_experiment/README case_studies/chamber_experiment/Environment.csv case_studies/het_chem/BOXMOX.nml case_studies/het_chem/InitialConditions.csv case_studies/het_chem/mech_used case_studies/het_chem/plot.R case_studies/het_chem/Aerosol.csv case_studies/het_chem/README case_studies/het_chem/Environment.csv case_studies/urban_plume/BOXMOX.nml case_studies/urban_plume/PhotolysisRates.csv case_studies/urban_plume/InitialConditions.csv case_studies/urban_plume/mech_used case_studies/urban_plume/Deposition.csv case_studies/urban_plume/Emissions.csv case_studies/urban_plume/plot.R case_studies/urban_plume/README case_studies/urban_plume/Environment.csv case_studies/dilution/BOXMOX.nml case_studies/dilution/PhotolysisRates.csv case_studies/dilution/Background.csv case_studies/dilution/InitialConditions.csv case_studies/dilution/mech_used case_studies/dilution/plot.R case_studies/dilution/README case_studies/dilution/Environment.csv case_studies/pbl_diurnal_cycle/BOXMOX.nml case_studies/pbl_diurnal_cycle/PhotolysisRates.csv case_studies/pbl_diurnal_cycle/Background.csv case_studies/pbl_diurnal_cycle/InitialConditions.csv case_studies/pbl_diurnal_cycle/mech_used case_studies/pbl_diurnal_cycle/Deposition.csv case_studies/pbl_diurnal_cycle/Emissions.csv case_studies/pbl_diurnal_cycle/plot.R case_studies/pbl_diurnal_cycle/README case_studies/pbl_diurnal_cycle/Environment.csv int/runge_kutta_adj.f90 int/atm_lsodes.f int/rosenbrock_adj.c int/gillespie.f90 int/kpp_seulex.f int/rosenbrock_tlm.def int/atm_lsodes.def int/kpp_dvode.f int/kpp_seulex.def int/none.def int/atm_radau5.f int/gillespie.def int/readme int/atm_radau5.def int/runge_kutta_tlm.f90 int/kpp_dvode.def int/sdirk.f90 int/sdirk_adj.c int/rosenbrock.c int/none.f90 int/runge_kutta.m int/runge_kutta_adj.def int/runge_kutta.c int/runge_kutta.def int/kpp_seulex.f90 int/kpp_lsode.def int/sdirk_tlm.f90 int/sdirk.def int/rosenbrock.f int/kpp_lsode.f90 int/gillespie.c int/sdirk.f int/kpp_dvode.f90.save int/tau_leap.f90 int/sdirk_adj.f90 int/rosenbrock.m int/none.f int/kpp_sdirk4.f90 int/rosenbrock_adj.f90 int/sdirk_adj.def int/tau_leap.def int/oldies/ros3.f int/oldies/qssafix.f int/oldies/qssa.f int/oldies/ros4_ddm.f int/oldies/kpp_ros4.f int/oldies/ros4.def int/oldies/ros3_ddm.def int/oldies/ros2_ddm.f int/oldies/ros2_cts_adj.f int/oldies/rodas3.f int/oldies/qssa1.f int/oldies/twostepj.f int/oldies/ros1.f int/oldies/ros2.f int/oldies/kpp_rodas.f int/oldies/rodas3.def int/oldies/qssafix.def int/oldies/ros1.def int/oldies/exqssa.def int/oldies/ros1_ddm.def int/oldies/exqssa.c int/oldies/ros3.def int/oldies/ros2.f90 int/oldies/rodas3_ddm.f int/oldies/ros3.c int/oldies/qssa.def int/oldies/ros1_ddm.f int/oldies/ros3_ddm.f int/oldies/kpp_ros4.def int/oldies/ros2_ddm.def int/oldies/ros2.c int/oldies/rodas3.c int/oldies/ros4_ddm.def int/oldies/kpp_rodas.def int/oldies/exqssa.f int/oldies/twostepj.def int/oldies/ros4.f int/oldies/rodas3_ddm.def int/oldies/ros2.def int/kpp_dvode.f90 int/rosenbrock_adj.def int/user_contributed/readme int/user_contributed/ros2_manual.f90 int/user_contributed/ros2_manual.def int/atm_odessa_ddm.f int/atm_odessa_ddm.def int/DVODE/dvode_f90_m.f90 int/DVODE/stiffoptions.dat int/DVODE/example1.f90 int/DVODE/dvode_f90_m.mod int/DVODE/NonstiffOptionsReadme.txt int/DVODE/a.out int/DVODE/example1.mod int/DVODE/nonstiffoptions.f90 int/DVODE/test.f90 int/DVODE/stiffoptions.f90 int/DVODE/ChangeRecord.txt int/DVODE/example2.f90 int/DVODE/StiffOptionsReadme.txt int/DVODE/quickstart.pdf int/DVODE/stiffset.mod int/DVODE/example1.dat int/kpp_odessa_ddm.f int/kpp_sdirk4.def int/kpp_sdirk4.f int/none.c int/rosenbrock_tlm.f90 int/none.m int/rosenbrock.def int/runge_kutta.f90 int/rosenbrock.f90 int/sdirk_tlm.def int/sdirk.m int/kpp_odessa_ddm.def int/kpp_radau5.f90 int/sdirk.c int/runge_kutta_tlm.def int/kpp_radau5.def models/NO_NO2.spc models/RADM2.spc models/MCMv3_3.def models/RACM.eqn models/RACM.spc models/CB05TUCl_NCSU.spc models/NO_NO2.eqn models/RADMKA.spc models/MOZART_4.def models/MOZART_T1.def models/MCMv3_3.spc models/CB05TUCl_EPA.spc models/CB05TUCl_EPA.eqn models/RACM.def models/CB05_CSIRO.spc models/MOZART_4.spc models/CB05TUCl_EPA.def models/SAPRC99.spc models/RADMKA.eqn models/smog.spc models/HETCHEM.def models/RADM2.def models/MOZART_T1.eqn models/atoms_red models/RADMKA.def models/CB05TUCl_NCSU.def models/HETCHEM.spc models/MOZART_4.eqn models/atoms models/RADM2.eqn models/CB05TUCl_NCSU.eqn models/smog.eqn models/CB05_CSIRO.eqn models/smog.def models/NO_NO2.def models/CBMZ.def models/HETCHEM.eqn models/CBMZ.eqn models/MCMv3_3.eqn models/MOZART_T1.spc models/CBMZ.spc models/SAPRC99.def models/SAPRC99.eqn models/CB05_CSIRO.def util/UpdateSun.c util/UserRateLaws.f90 util/UpdateSun.f90 util/Mex_Jac_SP.f90 util/mex.f util/dFun_dRcoeff.c util/blas.f util/ncar.c util/UpdateSun.f util/sutil.c util/Template_Fun_Chem.m util/Mex_Fun.f util/sparsity_plots.m util/sutil.f util/UserRateLaws_FcnHeader.f util/Mex_Jac_SP.f util/UserRateLaws_BOXMOX.f90 util/Mex_Hessian.f util/ncar.h util/Makefile.c util/Makefile.f90 util/UserRateLaws.f util/Mex_Hessian.f90 util/Mex_Jac_SP.c util/Mex_Fun.f90 util/dFun_dRcoeff.m util/dJac_dRcoeff.f90 util/mex.c util/util.f util/util.c util/util.f90 util/Makefile.f util/Template_Jac_Chem.m util/UserRateLaws.m util/dFun_dRcoeff.f90 util/Mex_Hessian.c util/dJac_dRcoeff.m util/sutil.f90 util/blas.f90 util/dJac_dRcoeff.f util/blas.c util/dJac_dRcoeff.c util/Mex_Fun.c util/dFun_dRcoeff.f util/tag2num.f90 util/util.m util/UpdateSun.m util/UserRateLaws.c ) make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make dist-gzip am__post_remove_distdir='@:' make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make distdir-am make[3]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' if test -d "boxmox-1.8"; then find "boxmox-1.8" -type d ! -perm -200 -exec chmod u+w {} ';' && rm -rf "boxmox-1.8" || { sleep 5 && rm -rf "boxmox-1.8"; }; else :; fi test -d "boxmox-1.8" || mkdir "boxmox-1.8" (cd src && make top_distdir=../boxmox-1.8 distdir=../boxmox-1.8/src \ am__remove_distdir=: am__skip_length_check=: am__skip_mode_fix=: distdir) make[4]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make distdir-am make[5]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[5]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[4]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make \ top_distdir="boxmox-1.8" distdir="boxmox-1.8" \ dist-hook make[4]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' chmod u+w boxmox-1.8/boxmox/wrapper chmod u+w boxmox-1.8/drv/boxmox.f90 chmod u+w boxmox-1.8/drv/boxmox_adjoint.f90 chmod u+w boxmox-1.8/scripts/new_BOXMOX_experiment chmod u+w boxmox-1.8/scripts/new_BOXMOX_experiment_from_example make[4]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' test -n "" \ || find "boxmox-1.8" -type d ! -perm -755 \ -exec chmod u+rwx,go+rx {} \; -o \ ! -type d ! -perm -444 -links 1 -exec chmod a+r {} \; -o \ ! -type d ! -perm -400 -exec chmod a+r {} \; -o \ ! -type d ! -perm -444 -exec /bin/bash /builds/gitlab/mbees/boxmox/boxmox-1.8/install-sh -c -m a+r {} {} \; \ || chmod -R a+r "boxmox-1.8" make[3]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' tardir=boxmox-1.8 && tar --format=posix -chf - "$tardir" | eval GZIP= gzip --best -c >boxmox-1.8.tar.gz make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' if test -d "boxmox-1.8"; then find "boxmox-1.8" -type d ! -perm -200 -exec chmod u+w {} ';' && rm -rf "boxmox-1.8" || { sleep 5 && rm -rf "boxmox-1.8"; }; else :; fi make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' make[1]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' Making distclean in src make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' test -z "kpp" || rm -f kpp rm -f *.o rm -f *.tab.c test -z "" || rm -f test . = "../../../src" || test -z "" || rm -f rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags rm -f ./.deps/bison.Po rm -f ./.deps/code.Po rm -f ./.deps/code_c.Po rm -f ./.deps/code_f77.Po rm -f ./.deps/code_f90.Po rm -f ./.deps/code_matlab.Po rm -f ./.deps/debug.Po rm -f ./.deps/gen.Po rm -f ./.deps/kpp.Po rm -f ./.deps/scanner.Po rm -f ./.deps/scanutil.Po rm -f ./.deps/yacc.Po rm -f Makefile make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub/src' make[2]: Entering directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' test -z "" || rm -f test . = "../.." || test -z "" || rm -f rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags rm -f cscope.out cscope.in.out cscope.po.out cscope.files make[2]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' rm -f config.status config.cache config.log configure.lineno config.status.lineno rm -f Makefile make[1]: Leaving directory '/builds/gitlab/mbees/boxmox/boxmox-1.8/_build/sub' if test -d "boxmox-1.8"; then find "boxmox-1.8" -type d ! -perm -200 -exec chmod u+w {} ';' && rm -rf "boxmox-1.8" || { sleep 5 && rm -rf "boxmox-1.8"; }; else :; fi ============================================ boxmox-1.8 archives ready for distribution: boxmox-1.8.tar.gz ============================================ section_end:1646998543:step_script section_start:1646998543:archive_cache Saving cache for successful job Creating cache default... /builds/gitlab/mbees/boxmox/build/: found 330 matching files and directories No URL provided, cache will be not uploaded to shared cache server. Cache will be stored only locally. Created cache section_end:1646998544:archive_cache section_start:1646998544:upload_artifacts_on_success Uploading artifacts for successful job Uploading artifacts... boxmox-*.tar.gz: found 1 matching files and directories Uploading artifacts as "archive" to coordinator... ok id=75 responseStatus=201 Created token=uGxG9YCz section_end:1646998544:upload_artifacts_on_success section_start:1646998544:cleanup_file_variables Cleaning up file based variables section_end:1646998545:cleanup_file_variables Job succeeded