Source: mafft Version: 6.864-1 Severity: serious Tags: wheezy sid User: debian...@lists.debian.org Usertags: qa-ftbfs-20120112 qa-ftbfs Justification: FTBFS on amd64
Hi, During a rebuild of all packages in sid, your package failed to build on amd64. Relevant part: > make[2]: Entering directory `/build/mafft-bZ9hLD/mafft-6.864/core' > cp mafft mafft-homologs.rb ../scripts > chmod 755 ../scripts/* > cp dvtditr dndfast7 dndblast sextet5 mafft-distance pairlocalalign pair2hat3s > multi2hat3s rnatest pairash splittbfast disttbfast tbfast mafft-profile f2cl > mccaskillwrap contrafoldwrap countlen seq2regtable regtable2seq score getlag > dndpre dndpre2 setcore replaceu restoreu version ../binaries > chmod 755 ../binaries/* > cp mafft.1 mafft-homologs.1 ../binaries > done. > mkdir -p /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/lib/mafft/lib/mafft > chmod 755 /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/lib/mafft/lib/mafft > mkdir -p /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/lib/mafft/bin > chmod 755 /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/lib/mafft/bin > chmod 755 mafft mafft-homologs.rb > install mafft mafft-homologs.rb > /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/lib/mafft/bin > chmod 755 dvtditr dndfast7 dndblast sextet5 mafft-distance pairlocalalign > pair2hat3s multi2hat3s rnatest pairash splittbfast disttbfast tbfast > mafft-profile f2cl mccaskillwrap contrafoldwrap countlen seq2regtable > regtable2seq score getlag dndpre dndpre2 setcore replaceu restoreu version > install dvtditr dndfast7 dndblast sextet5 mafft-distance pairlocalalign > pair2hat3s multi2hat3s rnatest pairash splittbfast disttbfast tbfast > mafft-profile f2cl mccaskillwrap contrafoldwrap countlen seq2regtable > regtable2seq score getlag dndpre dndpre2 setcore replaceu restoreu version > /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/lib/mafft/lib/mafft > install -m 644 mafft.1 mafft-homologs.1 > /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/lib/mafft/lib/mafft > ( cd /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/lib/mafft/bin; \ > rm -f linsi ginsi einsi fftns fftnsi nwns nwnsi xinsi qinsi; \ > rm -f mafft-linsi mafft-ginsi mafft-einsi mafft-fftns mafft-fftnsi mafft-nwns > mafft-nwnsi mafft-xinsi mafft-qinsi; \ > ln -s mafft linsi; ln -s mafft ginsi; ln -s mafft fftns; \ > ln -s mafft fftnsi; ln -s mafft nwns; ln -s mafft nwnsi; \ > ln -s mafft einsi; \ > ln -s mafft mafft-linsi; ln -s mafft mafft-ginsi; ln -s mafft mafft-fftns; \ > ln -s mafft mafft-fftnsi; ln -s mafft mafft-nwns; ln -s mafft mafft-nwnsi; \ > ln -s mafft mafft-einsi; ln -s mafft mafft-xinsi; ln -s mafft mafft-qinsi;\ > rm -f mafft-profile mafft-profile.exe; ln -s > /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/lib/mafft/lib/mafft/mafft-profile > .; \ > rm -f mafft-distance mafft-distance.exe; ln -s > /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/lib/mafft/lib/mafft/mafft-distance > . ) > mkdir -p /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/share/man/man1 > chmod 755 /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/share/man/man1 > install -m 644 mafft.1 mafft-homologs.1 > /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/share/man/man1 > make[2]: Leaving directory `/build/mafft-bZ9hLD/mafft-6.864/core' > rm /build/mafft-bZ9hLD/mafft-6.864/debian/mafft/usr/lib/mafft/lib/mafft/*.1 > # Testing Mafft… > MAFFT_BINARIES=/build/mafft-bZ9hLD/mafft-6.864/binaries scripts/mafft > test/sample | diff test/sample.fftns2 - > scripts/mafft: 1185: scripts/mafft: cannot create /dev/stderr: Permission > denied > scripts/mafft: 1186: scripts/mafft: cannot create /dev/stderr: Permission > denied > scripts/mafft: 1187: scripts/mafft: cannot create /dev/stderr: Permission > denied > scripts/mafft: 1188: scripts/mafft: cannot create /dev/stderr: Permission > denied > scripts/mafft: 1189: scripts/mafft: cannot create /dev/stderr: Permission > denied > scripts/mafft: 1190: scripts/mafft: cannot create /dev/stderr: Permission > denied > scripts/mafft: 1309: scripts/mafft: cannot create /dev/stderr: Permission > denied > 1,468d0 > < > 1== M63632 1 Lampetra japonica rhodopsin <>[BBRC174,1125-1132'91] > < ------------------------------------------------------------ > < ---------MNGTE--GDNFYVP----FSNKTGLARSPYEYPQY-YLAEPWK-------- > < -YSALAAYMFFLILVGFPVNFLTLFVTVQHKKLRTPLNYILLNLAMANLFMVLFG-FTVT > < MYTSMN-GYFV--FGPTMCSIEGFFATLGGEVALWSLVVLAIERYIVICKPMGN-FRFGN > < THAIMGVAFTWIMALAC-AAPPLVG-W-----SRYIPEGMQCSCGPDYYTLNPNFNNESY > < VVYMFVVHFLVPFVIIFFCYGRLLCTV--------------------------------- > < ------------------------------------------------------------ > < ------------------------------KEAAAAQQ----------ESASTQKA---- > < -------------------------EKEVTRMVVLMVIGFLVCWVPYASVAFYIFTHQGS > < D---FGATFMTLPAFFAKSSALYNPVIYILMNKQFRNCMITTLCCGKN------PLGDDE > < --SGASTSKTEVSSVS-TSPVSPA------------------------------------ > < --------------------------------------------------- > < > 2== U22180 1 rat opsin <rod>[J.Mol.Neurosci.5(3),207-209'94] > < ------------------------------------------------------------ > < ---------MNGTE--GPNFYVP----FSNITGVVRSPFEQPQY-YLAEPWQ-------- > < -FSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGG-FTTT > < LYTSLH-GYFV--FGPTGCNLEGFFATLGGEIGLWSLVVLAIERYVVVCKPMSN-FRFGE > < NHAIMGVAFTWVMALAC-AAPPLVG-W-----SRYIPEGMQCSCGIDYYTLKPEVNNESF > < VIYMFVVHFTIPMIVIFFCYGQLVFTV--------------------------------- > < ------------------------------------------------------------ > < ------------------------------KEAAAQQQ----------ESATTQKA---- > < -------------------------EKEVTRMVIIMVIFFLICWLPYASVAMYIFTHQGS > < N---FGPIFMTLPAFFAKTASIYNPIIYIMMNKQFRNCMLTSLCCGKN------PLGDDE > < --ASATASKTE------TSQVAPA------------------------------------ > < --------------------------------------------------- > < > 3== M92038 1 chicken green sensitive cone opsin > <retina>[PNAS89,5932-5936'9 > < ------------------------------------------------------------ > < ---------MNGTE--GINFYVP----MSNKTGVVRSPFEYPQY-YLAEPWK-------- > < -YRLVCCYIFFLISTGLPINLLTLLVTFKHKKLRQPLNYILVNLAVADLFMACFG-FTVT > < FYTAWN-GYFV--FGPVGCAVEGFFATLGGQVALWSLVVLAIERYIVVCKPMGN-FRFSA > < THAMMGIAFTWVMAFSC-AAPPLFG-W-----SRYMPEGMQCSCGPDYYTHNPDYHNESY > < VLYMFVIHFIIPVVVIFFSYGRLICKV--------------------------------- > < ------------------------------------------------------------ > < ------------------------------REAAAQQQ----------ESATTQKA---- > < -------------------------EKEVTRMVILMVLGFMLAWTPYAVVAFWIFTNKGA > < D---FTATLMAVPAFFSKSSSLYNPIIYVLMNKQFRNCMITTICCGKN------PFGDED > < VSSTVSQSKTEVSSVS-SSQVSPA------------------------------------ > < --------------------------------------------------- > < > 4=p A45229 opsin, green-sensitive (clone GFgr-1) - goldfish > < ------------------------------------------------------------ > < ---------MNGTE--GKNFYVP----MSNRTGLVRSPFEYPQY-YLAEPWQ-------- > < -FKILALYLFFLMSMGLPINGLTLVVTAQHKKLRQPLNFILVNLAVAGTIMVCFG-FTVT > < FYTAIN-GYFV--LGPTGCAVEGFMATLGGEVALWSLVVLAIERYIVVCKPMGS-FKFSS > < SHAFAGIAFTWVMALAC-AAPPLFG-W-----SRYIPEGMQCSCGPDYYTLNPDYNNESY > < VIYMFVCHFILPVAVIFFTYGRLVCTV--------------------------------- > < ------------------------------------------------------------ > < ------------------------------KAAAAQQQ----------DSASTQKA---- > < -------------------------EREVTKMVILMVFGFLIAWTPYATVAAWIFFNKGA > < D---FSAKFMAIPAFFSKSSALYNPVIYVLLNKQFRNCMLTTIFCGKN------PLGDDE > < -SSTVSTSKTEVSS------VSPA------------------------------------ > < --------------------------------------------------- > < > 5=p B45229 opsin, green-sensitive (clone GFgr-2) - goldfish > < ------------------------------------------------------------ > < ---------MNGTE--GNNFYVP----LSNRTGLVRSPFEYPQY-YLAEPWQ-------- > < -FKLLAVYMFFLICLGLPINGLTLICTAQHKKLRQPLNFILVNLAVAGAIMVCFG-FTVT > < FYTAIN-GYFA--LGPTGCAVEGFMATLGGEVALWSLVVLAIERYIVVCKPMGS-FKFSS > < THASAGIAFTWVMAMAC-AAPPLVG-W-----SRYIPEGIQCSCGPDYYTLNPEYNNESY > < VLYMFICHFILPVTIIFFTYGRLVCTV--------------------------------- > < ------------------------------------------------------------ > < ------------------------------KAAAAQQQ----------DSASTQKA---- > < -------------------------EREVTKMVILMVLGFLVAWTPYATVAAWIFFNKGA > make[1]: *** [override_dh_install] Error 1 The full build log is available from: http://people.debian.org/~lucas/logs/2012/01/12/mafft_6.864-1_lsid64.buildlog A list of current common problems and possible solutions is available at http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute! About the archive rebuild: The rebuild was done on about 50 AMD64 nodes of the Grid'5000 platform, using a clean chroot. Internet was not accessible from the build systems. -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org
