Author: tbooth-guest Date: 2013-06-05 12:14:06 +0000 (Wed, 05 Jun 2013) New Revision: 13837
Modified: trunk/packages/microbiomeutil/trunk/debian/changelog trunk/packages/microbiomeutil/trunk/debian/control trunk/packages/microbiomeutil/trunk/debian/rules Log: Pre-compute some necessary index files (ChimeraSlayer would do this anyway on the first run if it could write to the relevant dir) Please fold my latest changelog entry into the entry for -3 Modified: trunk/packages/microbiomeutil/trunk/debian/changelog =================================================================== --- trunk/packages/microbiomeutil/trunk/debian/changelog 2013-06-05 08:14:33 UTC (rev 13836) +++ trunk/packages/microbiomeutil/trunk/debian/changelog 2013-06-05 12:14:06 UTC (rev 13837) @@ -1,3 +1,12 @@ +microbiomeutil (20101212-1ubuntu8) precise; urgency=low + + * Bio-Linux rebuild with Andreas' fixes + * ChimeraSlayer run from QIIME was not working. Need to pre-compute + index files and add them to RESOURCES directory + * Also added missing direct dep on blast2 + + -- Tim Booth <[email protected]> Wed, 05 Jun 2013 12:50:22 +0100 + microbiomeutil (20101212-2) unstable; urgency=low * Initial release to Debian (Closes: #711086) Modified: trunk/packages/microbiomeutil/trunk/debian/control =================================================================== --- trunk/packages/microbiomeutil/trunk/debian/control 2013-06-05 08:14:33 UTC (rev 13836) +++ trunk/packages/microbiomeutil/trunk/debian/control 2013-06-05 12:14:06 UTC (rev 13837) @@ -6,7 +6,8 @@ Tim Booth <[email protected]>, Andreas Tille <[email protected]> Build-Depends: debhelper (>= 9), - cdbfasta + cdbfasta, + blast2 Standards-Version: 3.9.4 Homepage: http://microbiomeutil.sourceforge.net/ Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/microbiomeutil/trunk/ @@ -31,7 +32,8 @@ Architecture: all Depends: ${misc:Depends}, microbiomeutil-data, - cdbfasta + cdbfasta, + blast2 Recommends: nast-ier Description: detects likely chimeras in PCR amplified DNA ChimeraSlayer is a chimeric sequence detection utility, compatible with Modified: trunk/packages/microbiomeutil/trunk/debian/rules =================================================================== --- trunk/packages/microbiomeutil/trunk/debian/rules 2013-06-05 08:14:33 UTC (rev 13836) +++ trunk/packages/microbiomeutil/trunk/debian/rules 2013-06-05 12:14:06 UTC (rev 13837) @@ -11,6 +11,18 @@ override_dh_auto_test : true +override_dh_auto_build : + dh_auto_build + #Pre-make indexes for ChimeraSlayer, otherwise it tries to write them + #to the non-writeable dir on first run and blows up + formatdb -p F -i RESOURCES/rRNA16S.gold.fasta 2>/dev/null + cdbfasta -C RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta + +override_dh_auto_clean: + dh_auto_clean + rm -f RESOURCES/rRNA16S.gold.fasta.n* RESOURCES/*.cidx + rm -f formatdb.log + override_dh_install: dh_install -XMakefile -Xsample_data -XLICENSE -XNAST-iEr.c _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
