Mercurial > repos > brinkmanlab > make_unique_id
changeset 4:f2656e644641 draft
"planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/make_unique_id commit e3bef6bd24b0d0bf5645a5d1083c1fa886c19e4a"
| author | brinkmanlab |
|---|---|
| date | Tue, 16 Jun 2020 12:47:07 -0400 |
| parents | a2258ce2d58c |
| children | 85167b9e6c7a |
| files | make_unique_id.py make_unique_id.xml |
| diffstat | 2 files changed, 6 insertions(+), 13 deletions(-) [+] |
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--- a/make_unique_id.py Mon Jun 15 19:32:32 2020 -0400 +++ b/make_unique_id.py Tue Jun 16 12:47:07 2020 -0400 @@ -29,22 +29,15 @@ ids = defaultdict(int) def makeUnique(seq): - seqlenlen = len(str(len(seq))) - newid = seq.id[:26 - seqlenlen] # Genbank has a max length for the id and sequence length number, truncate the sequence id if too long - count = ids[newid] - ids[newid] += 1 + count = ids[seq.id] + ids[seq.id] += 1 if count: + oldid = seq.id suffix = "_" + str(count) - if len(newid) + len(suffix) + 1 + seqlenlen > 26: - newid = newid[:25 - seqlenlen - len(suffix)] - - newid += suffix + seq.id += suffix seq.name += suffix + print(f"{oldid}\t{seq.id}") - if seq.id != newid: - print(f"{seq.id}\t{newid}") - - seq.id = newid return seq
--- a/make_unique_id.xml Mon Jun 15 19:32:32 2020 -0400 +++ b/make_unique_id.xml Tue Jun 16 12:47:07 2020 -0400 @@ -10,7 +10,7 @@ </edam_operations> <requirements> <requirement type="package" version="3.7">python</requirement> - <requirement type="package" version="1.73">biopython</requirement> + <requirement type="package" version="1.76">biopython</requirement> </requirements> <version_command><![CDATA[ python $__tool_directory__/make_unique_id.py -v ]]></version_command> <command detect_errors="aggressive"><![CDATA[