Your message dated Sat, 17 Feb 2018 16:25:59 +0000 with message-id <[email protected]> and subject line Bug#890385: fixed in seqan2 2.4.0+dfsg-6 has caused the Debian Bug report #890385, regarding seqan2: fix the build on mips/mipsel 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 [email protected] immediately.) -- 890385: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=890385 Debian Bug Tracking System Contact [email protected] with problems
--- Begin Message ---Source: seqan2 Version: 2.4.0+dfsg-5 Severity: wishlist Tags: patch seqan2 with the change below builds for me on minkus. The contents is a partial revert back to 2.4.0+dfsg-3 plus adding -g1 on mips/mipsel to fix the virtual memory exhaustion. --- debian/control.old 2018-02-12 10:23:26.913006985 +0000 +++ debian/control 2018-02-12 10:24:47.173002461 +0000 @@ -27,8 +27,7 @@ Rules-Requires-Root: no Package: seqan-apps -Architecture: any-amd64 arm64 armel armhf any-i386 mips64el ppc64el s390x alpha hppa ia64 m68k powerpc powerpcspe ppc64 sh4 sparc64 x32 -# Skipping mips & mipsel due to lack of memory +Architecture: any Depends: ${shlibs:Depends}, ${misc:Depends} Description: C++ library for the analysis of biological sequences --- debian/rules.old 2018-02-12 10:23:20.209674029 +0000 +++ debian/rules 2018-02-12 10:42:30.956275835 +0000 @@ -21,14 +21,13 @@ endif ifneq (,$(filter mips mipsel mips64el,$(DEB_BUILD_ARCH))) - DEB_CXXFLAGS_MAINT_APPEND+=-mxgot -O2 - export DEB_CFLAGS_MAINT_APPEND+=-O2 -else - DEB_CXXFLAGS_MAINT_APPEND+=-O3 - export DEB_CFLAGS_MAINT_APPEND+=-O3 + DEB_CXXFLAGS_MAINT_APPEND+=-mxgot +endif + +ifneq (,$(filter mips mipsel,$(DEB_BUILD_ARCH))) + DEB_CXXFLAGS_MAINT_APPEND+=-g1 + DEB_CFLAGS_MAINT_APPEND+=-g1 endif -# As per upstream's instructions -DEB_CXXFLAGS_MAINT_APPEND+=-DNDEBUG MAX_PARALLEL="" # Disable or limit parallel building on some build archs to save memory @@ -44,7 +43,10 @@ # DEB_CXXFLAGS_MAINT_APPEND+=-DSEQAN_ASYNC_IO=0 # endif -export DEB_CXXFLAGS_MAINT_APPEND +# As per upstream's instructions +DEB_CXXFLAGS_MAINT_APPEND+=-DNDEBUG -O3 +export DEB_CFLAGS_MAINT_APPEND+=-O3 +export DEB_CXXFLAGS_MAINT_APPEND DEB_CFLAGS_MAINT_APPEND pkgapps=seqan-apps pkgdev=libseqan2-dev
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--- Begin Message ---Source: seqan2 Source-Version: 2.4.0+dfsg-6 We believe that the bug you reported is fixed in the latest version of seqan2, 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 [email protected], and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <[email protected]> (supplier of updated seqan2 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 [email protected]) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 1.8 Date: Sat, 17 Feb 2018 07:09:41 -0800 Source: seqan2 Binary: seqan-apps libseqan2-dev Architecture: source Version: 2.4.0+dfsg-6 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <[email protected]> Changed-By: Michael R. Crusoe <[email protected]> Description: libseqan2-dev - C++ library for the analysis of biological sequences (development seqan-apps - C++ library for the analysis of biological sequences Closes: 890385 Changes: seqan2 (2.4.0+dfsg-6) unstable; urgency=medium . * Retry building on mips*; patch adapted from Adrian Bunk <[email protected]> Closes: #890385. Thanks! * Document CWL generation via README.source. Mark all CWL files as executable * Enable AutoPackageTests for seqan-apps * Applied 2 patches from upstream: add mandatory ctdVersion element, fix errors in manpage output * Suggest cwltool | cwl-runner. Checksums-Sha1: 699ca6b40e5180bf63df7ddafc0a108db4e7af27 2206 seqan2_2.4.0+dfsg-6.dsc 3e37e1f9859fd4e3c73b78db84d5f9f7921b88ea 30424 seqan2_2.4.0+dfsg-6.debian.tar.xz c485e31e6bceaa9f18133dbb8f807d7b6a12a0d0 6406 seqan2_2.4.0+dfsg-6_source.buildinfo Checksums-Sha256: 6a574c5252e6e0c91874e716c95f71843fb26cffe7cdc48ae886abff54eb55d7 2206 seqan2_2.4.0+dfsg-6.dsc c28244035051b5a4beac3b932477f7ba235bc15216227e96973c82f57c918eec 30424 seqan2_2.4.0+dfsg-6.debian.tar.xz 9accfd2f0d0144e049f44fc8cab68394a76f95e8aff8280cc0dd9c271989e378 6406 seqan2_2.4.0+dfsg-6_source.buildinfo Files: f388d40795e1780abf3d17e140f656a1 2206 science optional seqan2_2.4.0+dfsg-6.dsc c943af40c6c4427ad8e2dd01522dee38 30424 science optional seqan2_2.4.0+dfsg-6.debian.tar.xz 83230e220cdd076c5448093df096aa0e 6406 science optional seqan2_2.4.0+dfsg-6_source.buildinfo -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAlqIRfkACgkQPCZ2P2xn 5uJTZhAAg7UeopWrhApaMbeJbh5SwQhIhCP8E48D5P5Yt2F51RcixlydqJiVL50f wPF+LR0OqRfhxUeuv0fOWNwFqvznzviWLYFI0fsObhmHdmPaMVmCqNurWQiMj226 yivnjJvRw8IQGeyTXv1PFnsKjaiuQRiWjFrK7Vi2yUrWwPihRWC/L4BoNMi1yzFu 3O6lSGfl8E/8vIc4ZnO6S28lnJUsHpuH+MZGUu0mo/X8KYhhYKTTlTuYzuQ3LWMB ySXGN0GvZdjEjnH5mkQVbN/d8gPdRdv1DdVvYWCePjWbHN5M1Btxm6aixRDm1thg 3PGH7sMkKCj0mW/8Nnfo6HsL52vk7CB/sL6SpCJShBq0ETxltzZyIToTocciDlcn bch0sJS54BjmKkiXZPQFsQiUR4UtLY6LLueAbWZQ6i7/fCWiu44GT7DmGJXKLJkO F3dh49J8wM4qQyrjYXSKwIcOXdymN3WCWGa5lwOhjoEcC+aofjaadaDiTJ66gj+a paOs/o5g9MgA8iBeGUmhXulEupGRpN8cd+Nw0WrCRL4TyWWj8lOvilG0mFOKEMbJ 1l6JBoIbNxXZPTnWePIPRdmlffMqrB6NObDf4Gk4jv69/kp5r52Tvn+4ejmPd7cf qbDC1WdIUQMenwK8CjaQJZEMwgcsHG4/6h/0vLe1CvYrqUlkbxw= =1Mex -----END PGP SIGNATURE-----
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