Le Thu, Dec 10, 2009 at 01:36:14PM +0000, Peter Rice a écrit : > A patch for EMBOSS 6.1.0 is on the FTP server. This fixes problems with > extractfeat, using format names with dashes (fastq-sanger) in USAs, > scaling issues in plot outputs, and some minor bugs. > > The files are on our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/fixes > with a patch file and instructions in the patches subdirectory. > > Fix 3. EMBOSS-6.1.0/ajax/ajfeat.c > EMBOSS-6.1.0/ajax/ajfeat.h > EMBOSS-6.1.0/ajax/ajgraph.c > EMBOSS-6.1.0/ajax/ajmath.c > EMBOSS-6.1.0/ajax/ajseq.c > EMBOSS-6.1.0/ajax/ajseqread.c > EMBOSS-6.1.0/ajax/ajseqwrite.c > EMBOSS-6.1.0/nucleus/embmisc.c > EMBOSS-6.1.0/nucleus/embmisc.h > EMBOSS-6.1.0/nucleus/embpat.c > EMBOSS-6.1.0/emboss/coderet.c > EMBOSS-6.1.0/emboss/extractfeat.c > EMBOSS-6.1.0/emboss/notseq.c > EMBOSS-6.1.0/emboss/prettyplot.c > EMBOSS-6.1.0/emboss/seqmatchall.c > EMBOSS-6.1.0/emboss/showfeat.c > EMBOSS-6.1.0/emboss/showpep.c > EMBOSS-6.1.0/emboss/showseq.c > EMBOSS-6.1.0/emboss/twofeat.c > EMBOSS-6.1.0/jemboss/utils/install-jemboss-server.sh
Dear Peter and all EMBOSS developers, There were two issues that were discussed previously on the EMBOSS user list or on the sourceforge tracker, that I do not see fixed in this patch. The EMBOSS package distributed by Debian contains a patch for each of them. 1) To prevent vectorstrip to discard FASTQ qualities. http://git.debian.org/?p=debian-med/emboss.git;a=blob;f=debian/patches/transient-vectorstrip.patch;h=c4d8fd1e6c6d223ec8664b1aa08171407f9ace55;hb=HEAD https://sourceforge.net/tracker/index.php?func=detail&aid=2886368&group_id=93650&atid=605034 2) To help tfm to find the HTML documentation. http://git.debian.org/?p=debian-med/emboss.git;a=blob;f=debian/patches/tfm-html.patch;h=c0595eb5008f53fec27e0ba4ff144c6385c6acdd;hb=HEAD https://sourceforge.net/tracker/?func=detail&aid=2877960&group_id=93650&atid=605031 I would welcome in particular comments on the second patch. If it is not suitable, then I will remove it from the Debian package. Best regards, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan _______________________________________________ EMBOSS mailing list [email protected] http://lists.open-bio.org/mailman/listinfo/emboss
