I recently tried the -o option for RNAseq_annotate.py. Seems like it's expecting a subdirectory with a date to exist.
python3 /lustre/project/nal_genomics/hsiukang/rnannot_venv/bin/RNAseq_annotate.py -i SRR3883760.tsv -g GCF_008802855.1_Ppyr1.3_genomic.fna.gz -a Ppyr1.3 -o SRR3883760
new
Traceback (most recent call last):
File "/lustre/project/nal_genomics/hsiukang/rnannot_venv/bin/RNAseq_annotate.py", line 4, in <module>
__import__('pkg_resources').run_script('rnannot==0.0.1', 'RNAseq_annotate.py')
File "/lustre/project/nal_genomics/hsiukang/rnannot_venv/lib/python3.7/site-packages/pkg_resources/__init__.py", line 665, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/lustre/project/nal_genomics/hsiukang/rnannot_venv/lib/python3.7/site-packages/pkg_resources/__init__.py", line 1463, in run_script
exec(code, namespace, namespace)
File "/lustre/project/nal_genomics/hsiukang/rnannot_venv/lib/python3.7/site-packages/rnannot-0.0.1-py3.7.egg/EGG-INFO/scripts/RNAseq_annotate.py", line 295, in <module>
os.mkdir(path.join(args.outdir, args.name))
FileNotFoundError: [Errno 2] No such file or directory: '/lustre/project/nal_genomics/monica.poelchau/rnaseq-phopyr/SRR3883760/2021-02-12-12-05-11'
I recently tried the -o option for RNAseq_annotate.py. Seems like it's expecting a subdirectory with a date to exist.