Comments (2)
jorvis
commented on July 16, 2024
I don't use conda but will happily accept a pull request with this added to the README if you're interested in doing it. My only suggestions to change would be the 'misc3' to something like 'biocode' (why not?) and accepting any Python 3.4 or higher.
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mikemc
commented on July 16, 2024
I just installed Biocode via this method and have one minor suggestion if these instructions are added to the README. I came here looking for a way to convert Genbank files to GFF3 files, and in addition to the above I had to install Biopython to the conda environment before I could use the gff/convert_genbank_to_gff3.py script. If Biopython is a common requirement for Biocode scripts then it might be worth adding it to the conda create call or mentioning it as an optional dependency.
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Related Issues (20)
- convert_gff3_to_ncbi_tbl HOT 5
- Syntax error on gff.py HOT 4
- Exclude mRNA features in bacterial TBL exports
- Attribute error for update_selected_column9_values.py HOT 1
- Biocode.gff module error HOT 2
- [convert_genbank_to_gff3.py] key_error: locus_tag HOT 5
- AttributeError: type object 'str' has no attribute 'maketrans' HOT 2
- AttributeError: 'Gene' object has no attribute 'add_CDS' HOT 4
- Insert EC numbers into chado database issue HOT 5
- convert_augustus_to_gff3.py error HOT 6
- convert_gff3_to_ncbi_tbl.py HOT 2
- convert_gff_to_ncbi_tbl.py HOT 3
- Incorrect parent features from convert_tRNAScanSE_to_gff3.pl HOT 2
- Formatting Issue? HOT 2
- biocode error HOT 16
- product info not printout in tbl HOT 2
- fasta/fasta_simple_stats.py fails on any file with only one sequence
- [convert_genbank_to_gff3.py] No Locus_tag present in my genbank file HOT 2
- Python upgrade/conversion? HOT 1
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