Added mothur toolsuite
git-svn-id: http://svn.biodiversity.agr.gc.ca/repo/source/Galaxy/trunk@5154 8f470391-0214-0410-be57-dbd57b47fce5
removing mercurial repo from svn.

git-svn-id: http://svn.biodiversity.agr.gc.ca/repo/source/Galaxy/trunk@5155 8f470391-0214-0410-be57-dbd57b47fce5
adding .hgignore

git-svn-id: http://svn.biodiversity.agr.gc.ca/repo/source/Galaxy/trunk@5156 8f470391-0214-0410-be57-dbd57b47fce5
Removing incorrectly named .hgignore

git-svn-id: http://svn.biodiversity.agr.gc.ca/repo/source/Galaxy/trunk@5157 8f470391-0214-0410-be57-dbd57b47fce5
update to the following tools:
fastq.info
merge.sfffiles
sffinfo
shhh.flows
summary.seqs
trim.flows
trim.seqs
unique.seqs



git-svn-id: http://svn.biodiversity.agr.gc.ca/repo/source/Galaxy/trunk@5171 8f470391-0214-0410-be57-dbd57b47fce5
final version


git-svn-id: http://svn.biodiversity.agr.gc.ca/repo/source/Galaxy/trunk@5214 8f470391-0214-0410-be57-dbd57b47fce5
Fixed issue with seq.error exiting with a segfault after it completes by ignoring the non-zero exit code since the data is written.

git-svn-id: http://svn.biodiversity.agr.gc.ca/repo/source/Galaxy/trunk@5230 8f470391-0214-0410-be57-dbd57b47fce5
Added misa to primer3 converted script


git-svn-id: http://svn.biodiversity.agr.gc.ca/repo/source/Galaxy/trunk@5349 8f470391-0214-0410-be57-dbd57b47fce5
Remove Try::Tiny

git-svn-id: http://svn.biodiversity.agr.gc.ca/repo/source/Galaxy/trunk@5350 8f470391-0214-0410-be57-dbd57b47fce5
bug 3946: Upgrade Chimera.uchime to Mothur 1.33.
bug 3946: Upgrade Chimera.uchime to Mothur 1.33; change compile options for centos.
Mostly trivial updates to some tools
Properly added parameters for make.bion and make.fastq. Fixed check boxes for trivial upgrades.
large commit of tool updates, mostly simple
fixed some typos in xml files, all tools should load
forgot to update chimera.persesus. Small fixes in mothur_wrapper
small changes
updated readme, included repo dependency for blast legacy
New datatypes added for 1.33 (metadata otu_map)