Mercurial > repos > peterjc > blast_rbh
changeset 42:2bca27f8abb2 draft default tip
v0.3.0 - Updated to BLAST+ 2.9.0 via conda; removed legacy tool packages.
| author | peterjc |
|---|---|
| date | Wed, 07 Dec 2022 09:58:43 +0000 |
| parents | 38fe3aaa15aa |
| children | |
| files | tools/blast_rbh/best_hits.py tools/blast_rbh/blast_rbh.py |
| diffstat | 2 files changed, 2 insertions(+), 6 deletions(-) [+] |
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--- a/tools/blast_rbh/best_hits.py Thu Sep 10 11:13:56 2020 +0000 +++ b/tools/blast_rbh/best_hits.py Wed Dec 07 09:58:43 2022 +0000 @@ -10,7 +10,6 @@ Please cite the author per instructions in https://github.com/peterjc/galaxy_blast/blob/master/tools/blast_rbh/README.rst """ - import sys tie_warning = 0
--- a/tools/blast_rbh/blast_rbh.py Thu Sep 10 11:13:56 2020 +0000 +++ b/tools/blast_rbh/blast_rbh.py Wed Dec 07 09:58:43 2022 +0000 @@ -12,22 +12,19 @@ definition file. This is available as a package on the Galaxy Tool Shed: http://toolshed.g2.bx.psu.edu/view/peterjc/blast_rbh """ - # TODO - Output more columns, e.g. pident, qcovs, descriptions? # TODO - Use new -qcov_hsp_perc option in BLAST+ 2.2.30 to filter # results, rather than doing minimum HSP coverage in Python. # [Not doing this right now as would break on older BLAST+] - from __future__ import print_function import os import shutil import sys import tempfile -import best_hits +from optparse import OptionParser - -from optparse import OptionParser +import best_hits def run(cmd):