Hi, I try to run the Read Distribution Tool but I get an error: ValueError: invalid literal for int() with base 10: ‘’ The input files are BAM and BED.
processing /galaxy-repl/main/files/035/202/dataset_35202664.dat …Traceback (most recent call last):
File “/cvmfs/main.galaxyproject.org/deps/_conda/envs/__rseqc@2.6.4/bin/read_distribution.py”, line 4, in
import(‘pkg_resources’).run_script(‘RSeQC==2.6.4’, ‘read_distribution.py’)
File “/cvmfs/main.galaxyproject.org/deps/_conda/envs/__rseqc@2.6.4/lib/python2.7/site-packages/pkg_resources/init.py”, line 658, in run_script
self.require(requires)[0].run_script(script_name, ns)
File “/cvmfs/main.galaxyproject.org/deps/_conda/envs/__rseqc@2.6.4/lib/python2.7/site-packages/pkg_resources/init.py”, line 1438, in run_script
exec(code, namespace, namespace)
File “/cvmfs/main.galaxyproject.org/deps/_conda/envs/__rseqc@2.6.4/lib/python2.7/site-packages/RSeQC-2.6.4-py2.7.egg-info/scripts/read_distribution.py”, line 303, in
main()
File “/cvmfs/main.galaxyproject.org/deps/_conda/envs/__rseqc@2.6.4/lib/python2.7/site-packages/RSeQC-2.6.4-py2.7.egg-info/scripts/read_distribution.py”, line 192, in main
intergenic_down1kb_base,intergenic_down5kb_base,intergenic_down10kb_base) = process_gene_model(options.ref_gene_model)
File “/cvmfs/main.galaxyproject.org/deps/_conda/envs/__rseqc@2.6.4/lib/python2.7/site-packages/RSeQC-2.6.4-py2.7.egg-info/scripts/read_distribution.py”, line 76, in process_gene_model
utr_3 = obj.getUTR(utr=3)
File “/cvmfs/main.galaxyproject.org/deps/_conda/envs/__rseqc@2.6.4/lib/python2.7/site-packages/qcmodule/BED.py”, line 435, in getUTR
exon_start=map(int,fields[11].rstrip(’,’).split(’,’))
ValueError: invalid literal for int() with base 10: ‘’