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add todo for printing splice info infer_roothogs.py
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FastOMA/infer_roothogs.py

Lines changed: 2 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -43,7 +43,7 @@ def fastoma_infer_roothogs():
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hogmaps, unmapped = _utils_roothog.parse_hogmap_omamer(prot_recs_lists, fasta_format_keep, folder=conf.hogmap) # optional input folder
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splice_files = conf.splice is not None and os.path.exists(conf.splice)
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if splice_files:
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if splice_files: # todo print some log on parsing the splice files eg number of isoforms
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isoform_by_gene_all = _utils_roothog.parse_isoform_file(species_names, folder=conf.splice)
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isoform_selected, isoform_not_selected = _utils_roothog.find_nonbest_isoform(
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species_names, isoform_by_gene_all, hogmaps
@@ -71,4 +71,4 @@ def fastoma_infer_roothogs():
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if __name__ == "__main__":
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fastoma_infer_roothogs()
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fastoma_infer_roothogs()

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