# HG changeset patch -- Bitbucket.org # Project galaxy-dist # URL http://bitbucket.org/galaxy/galaxy-dist/overview # User Nate Coraor nate@bx.psu.edu # Date 1289402803 18000 # Node ID ecaf015e009a35a3cf421a87fbab1c5d0bbba5b4 # Parent 2c2a22396a2641a52dc5f200d26a3d947cf11cbd (recommit): porocessTaxonomynow removes parenthesis fixing various tree drawing issues in metagenomic tools. Major rework of MG tools needed to ensure reproducibility

--- a/scripts/taxonomy/processTaxonomy.sh +++ b/scripts/taxonomy/processTaxonomy.sh @@ -10,5 +10,9 @@ cat gi_taxid_nucl.dmp gi_taxid_prot.dmp echo "Sorting gi2tax files..." sort -n -k 1 gi_taxid_all.dmp > gi_taxid_sorted.txt rm gi_taxid_nucl.dmp gi_taxid_prot.dmp gi_taxid_all.dmp +echo "Removing parenthesis from names.dmp" +cat names.dmp | sed s/(/_/g | sed s/)/_/g > names.temporary +mv names.dmp names.dmp.orig +mv names.temporary names.dmp