On 12/14/2009 11:59 AM, Charles Plessy wrote:
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
Sorry, we missed that update in goiing through the changes in the
ajseq.c file.
We will add it to the next patch.
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
This one is wrong. If the documentation is not found in the install
directory (which it should be with a standard 'make install') tfm looks
in ajNamValueBaseDir which is the top level directory.
The Debian patch uses ajNamValueRootDir which is the emboss/
subdirectory used when finding uninstalled ACD files.
embossversion -full shows both these paths.
Hope this helps,
Peter Rice
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