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Bug 259853 - new package request sci-biology/roche454ace2caf: some tools to convert GS20 or FLX assemblies (454Contigs.ace) into STADEN format
Summary: new package request sci-biology/roche454ace2caf: some tools to convert GS20 o...
Status: CONFIRMED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: New packages (show other bugs)
Hardware: All Linux
: High enhancement (vote)
Assignee: Default Assignee for New Packages
URL: http://genome.imb-jena.de/software/ro...
Whiteboard: [science]
Keywords: InOverlay
Depends on:
Blocks:
 
Reported: 2009-02-21 21:40 UTC by Martin Mokrejš
Modified: 2011-01-04 00:19 UTC (History)
1 user (show)

See Also:
Package list:
Runtime testing required: ---

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Comment 1 Andreas K. Hüttel archtester gentoo-dev 2010-10-30 11:54:40 UTC 
No comments have been made on this bug report for some time.
Is anyone still interested in integration of this package? 

If yes, please indicate that here in this bug report.

Otherwise we'll resolve the bug in the near future, since sci(-*) has
an extremely large number of pending package requests and we would like
to focus...
Comment 2 Martin Mokrejš 2010-12-10 11:34:49 UTC 
Am sorting out now with upstream what are the diffs and deps of this package, license, etc.

I think this package will boil down (currently provides also binaries of other tools) to just the perl scripts and depend on these already in science overlay: caftools, staden, gap2caf. sff_dump package we do not have yet.
Comment 3 Martin Mokrejš 2011-01-04 00:19:56 UTC 
In science overlay are now under sci-biology: align_to_scf, sff_dump, caftools, roche454ace2caf.

I only wonder what in roche454ace2gap is written in ksh-specific syntax. I wish upstream changes that into bash-like style once.