1 new changeset in galaxy-central:
http://bitbucket.org/galaxy/galaxy-central/changeset/c761ea39e3c9/ changeset: r5280:c761ea39e3c9 user: kellyv date: 2011-03-29 19:59:07 summary: Modified add_manual_builds script so that it will include the build in parentheses after the name even if there are no chromosome lengths listed (previously would not because of line break after name); also added a couple of new manual builds affected #: 2 files (454 bytes)
--- a/cron/add_manual_builds.py Tue Mar 29 13:43:24 2011 -0400 +++ b/cron/add_manual_builds.py Tue Mar 29 13:59:07 2011 -0400 @@ -21,12 +21,12 @@ build_file_out = open(build_file,'a') for line in open(input_file): try: - fields = line.split("\t") + fields = line.replace("\n","").replace("\r","").split("\t") build = fields.pop(0) if build in existing_builds: continue # if build exists, leave alone name = fields.pop(0) try: # get chrom lens if included in file, otherwise still add build - chrs = fields.pop(0).replace("\n","").replace("\r","").split(",") + chrs = fields.pop(0).split(",") except: chrs = [] print>>build_file_out, build+"\t"+name+" ("+build+")"
--- a/tool-data/shared/ucsc/manual_builds.txt Tue Mar 29 13:43:24 2011 -0400 +++ b/tool-data/shared/ucsc/manual_builds.txt Tue Mar 29 13:59:07 2011 -0400 @@ -698,3 +698,5 @@ Hydra_JCVI Hydra magnipapillata str. 105 Araly1 Arabidopsis lyrata Zea_mays_B73_RefGen_v2 Maize (Zea mays) chr1=301354135,chr2=237068928,chr3=232140222,chr4=241473566,chr5=217872898,chr6=169174371,chr7=176764813,chr8=175793772,chr9=156750718,chr10=150189513,chr11=7140224 +Homo_sapiens_AK1 Korean Man chrM=16571,chr1=247249719,chr2=242951149,chr3=199501827,chr4=191273063,chr5=180857866,chr6=170899992,chr7=158821424,chr8=146274826,chr9=140273252,chr10=135374737,chr11=134452384,chr12=132349534,chr13=114142980,chr14=106368585,chr15=100338915,chr16=88827254,chr17=78774742,chr18=76117153,chr19=63811651,chr20=62435964,chr21=46944323,chr22=49691432,chrX=154913754,chrY=57772954 +Tcas_3.0 Red Flour Beetle (Tribolium castaneum)
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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