Your message dated Fri, 22 Aug 2014 09:04:45 +0000 with message-id <e1xkkm5-0007uy...@franck.debian.org> and subject line Bug#754664: fixed in tophat 2.0.12+dfsg-2 has caused the Debian Bug report #754664, regarding tophat: FTBFS on mips/mipsel: error: invalid abstract return type 'seqan::FileFormat…' to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 754664: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=754664 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: tophat Version: 2.0.12+dfsg-1 Severity: serious Justification: FTBFS Hi, your package no longer builds on mips/mipsel: | make[3]: Entering directory '/«BUILDDIR»/tophat-2.0.12+dfsg/src' | g++ -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -Wall -Wno-strict-aliasing -g -gdwarf-2 -Wuninitialized -O3 -g -O2 -Wformat -Werror=format-security -DNDEBUG -pthread -I/usr/include -c -o reads.o reads.cpp | In file included from /usr/include/seqan/file.h:56:0, | from /usr/include/seqan/score/score_matrix.h:40, | from /usr/include/seqan/score.h:48, | from /usr/include/seqan/find.h:45, | from reads.cpp:21: | /usr/include/seqan/file/file_generated_forwards.h:927:66: error: invalid abstract return type 'seqan::FileFormat<TFile, TData, TMeta, void>' | template <typename TFile, typename TData, typename TMeta> inline FileFormat<TFile, TData, TMeta, void> guessFileFormat(TFile & file, TData & data); // "seqan-1.3.1/seqan/file/file_format_guess.h"(65) | ^ | In file included from /usr/include/seqan/file.h:84:0, | from /usr/include/seqan/score/score_matrix.h:40, | from /usr/include/seqan/score.h:48, | from /usr/include/seqan/find.h:45, | from reads.cpp:21: | /usr/include/seqan/file/file_format.h:143:8: note: because the following virtual functions are pure within 'seqan::FileFormat<TFile, TData, TMeta, void>': | struct FileFormat<TFile, TData, TMeta, void> | ^ | /usr/include/seqan/file/file_format.h:154:2: note: virtual void* seqan::FileFormat<TFile, TData, TMeta, void>::formatID_() const | formatID_() const = 0; | ^ | /usr/include/seqan/file/file_format.h:157:2: note: virtual void seqan::FileFormat<TFile, TData, TMeta, void>::read_(TFile&, TData&) const | read_(TFile & file, TData & data) const = 0; | ^ | /usr/include/seqan/file/file_format.h:159:2: note: virtual void seqan::FileFormat<TFile, TData, TMeta, void>::read_(TFile&, TData&, seqan::FileFormat<TFile, TData, TMeta, void>::TSize) const | read_(TFile & file, TData & data, TSize limit) const = 0; | ^ | /usr/include/seqan/file/file_format.h:162:2: note: virtual void seqan::FileFormat<TFile, TData, TMeta, void>::readMeta_(TFile&, TMeta&) const | readMeta_(TFile & file, TMeta & meta) const = 0; | ^ | /usr/include/seqan/file/file_format.h:165:2: note: virtual void seqan::FileFormat<TFile, TData, TMeta, void>::goNext_(TFile&) const | goNext_(TFile & file) const = 0; | ^ | /usr/include/seqan/file/file_format.h:168:2: note: virtual seqan::FileFormat<TFile, TData, TMeta, void>::TSize seqan::FileFormat<TFile, TData, TMeta, void>::length_(TFile&) const | length_(TFile & file) const = 0; | ^ | /usr/include/seqan/file/file_format.h:171:2: note: virtual void seqan::FileFormat<TFile, TData, TMeta, void>::write_(TFile&, TData&) const | write_(TFile & file, TData & data) const = 0; | ^ | /usr/include/seqan/file/file_format.h:173:2: note: virtual void seqan::FileFormat<TFile, TData, TMeta, void>::write_(TFile&, TData&, TMeta&) const | write_(TFile & file, TData & data, TMeta & meta) const = 0; | ^ | make[3]: *** [reads.o] Error 1 Full build logs: https://buildd.debian.org/status/fetch.php?pkg=tophat&arch=mips&ver=2.0.12%2Bdfsg-1&stamp=1404739146 https://buildd.debian.org/status/fetch.php?pkg=tophat&arch=mipsel&ver=2.0.12%2Bdfsg-1&stamp=1404743513 Mraw, KiBi.
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--- Begin Message ---Source: tophat Source-Version: 2.0.12+dfsg-2 We believe that the bug you reported is fixed in the latest version of tophat, which is due to be installed in the Debian FTP archive. A summary of the changes between this version and the previous one is attached. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 754...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille <ti...@debian.org> (supplier of updated tophat package) (This message was generated automatically at their request; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 1.8 Date: Fri, 22 Aug 2014 10:04:23 +0200 Source: tophat Binary: tophat Architecture: source amd64 Version: 2.0.12+dfsg-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Description: tophat - fast splice junction mapper for RNA-Seq reads Closes: 754664 Changes: tophat (2.0.12+dfsg-2) unstable; urgency=medium . * d/rules: - Fix syntax of uscan call - Remove redundant enforcement of xz compression * d/control: Versioned Build-Depends: seqan-dev (>= 1.4) Closes: #754664 Checksums-Sha1: f4c7e0faf6120e558a7e21527de89ba79feff66a 2170 tophat_2.0.12+dfsg-2.dsc b864a5d315d1bff18ec46c06c8891ca09a0a3d3b 7316 tophat_2.0.12+dfsg-2.debian.tar.xz ccb0662c5bbefbef7f530be222e8d0643af1ba68 621020 tophat_2.0.12+dfsg-2_amd64.deb Checksums-Sha256: e8fbe9f2ce0408970f7b968a8a14fc174468cd7ce55885d5686fdb5c10085698 2170 tophat_2.0.12+dfsg-2.dsc 14cd50a20bfd52d715ee92e346a21cdfbb3799789a8c4b3b648252ddd505c035 7316 tophat_2.0.12+dfsg-2.debian.tar.xz 763f7460486e5a3c64f85437d98abd40f19d704f4e292d80f688bbb4ad1993d0 621020 tophat_2.0.12+dfsg-2_amd64.deb Files: 094aa00b9acda114cd48e43621e88fd1 621020 science optional tophat_2.0.12+dfsg-2_amd64.deb 1fef097931caebcd9fa4851827357930 2170 science optional tophat_2.0.12+dfsg-2.dsc 33e563fc364e5516882055c1b3c5a776 7316 science optional tophat_2.0.12+dfsg-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- Version: GnuPG v1 iQIcBAEBCAAGBQJT9wMeAAoJEFeKBJTRxkbRQeUP/i2Qi9PFh37Fb7tXVcGswwN+ 42pYQjdBxbB3+UpwNJte/pjMyVJfYwVXa7Xni0M7UPsXCBq0AtHJ0zmXyQtxR2nv CII0g0CFHs/ceig1AGx/HX2yyLoUnJ23Qaxn//p7+X+DXVF/dHxCP6mcSZrxQLVr ex5BGOyNqLU8BjBrfK/ghQ0Id0/V1IP4MBiOON4dl7im51EBPUk1kDlRb5XtQ0Wj FFefeB7hPfV+LpKlIx5MqOrJTX9lngYEJbM4EbSb+lmH99b/C0nF5gxBhlhaem5Y ZaIaUwpTiFS60M1Xu3jY7K3jZRcRogrbkyjSWdkqJgniVVQSxcyTmQftgC6jlqBt huUsEa0uLz2XWWJuH257AD4XRolhCVuwSanVjf1HtQX+w/Q2BNE8mdJMjbulPWbG CuHxo0fid2Oqo5fLrv2u4fjhmgnsbqTVNrf9QTXjhs8BQvKvDwgtA4mq/RteUGGz 3vIp9SbXOQec1ro1kJAxuOwFxKNXNpg2vV8J9k/w/66xdqlWE3m86rXCqB0ATUou G9bAbqfcTe/dnFl6s6dD85iUkjyvLIeR+y13wzSziMBSvTsrp2KiUuUoZfGeMb6e ZlvFvtF7Ua7tmEBpeoFHeaErn5mIbQvcwcqVsgD0CdVfoKbm+yRYT35JQvoLSfis YK7vP4zaHe82x1ybJecG =d06Z -----END PGP SIGNATURE-----
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