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chr name/number/ error #9

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mujahida87 opened this issue Mar 24, 2022 · 0 comments
Open

chr name/number/ error #9

mujahida87 opened this issue Mar 24, 2022 · 0 comments

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@mujahida87
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The "Sci" description looks amazing tool, is it applicable in other model organisms? I tried to use it for Drosophila melanogaster Hi-C subcompartmentalization and got the below error.
My commond;
/apps/sci/20220324/bin/python -m sci.sci -n test -f emb.bwa_5kb_corrected.adj.txt -r 5000 -g chr.txt -o both -s 1 -k 5

error:
Traceback (most recent call last):
File "/apps/python2/2.7.15/lib/python2.7/runpy.py", line 174, in _run_module_as_main
"main", fname, loader, pkg_name)
File "/apps/python2/2.7.15/lib/python2.7/runpy.py", line 72, in _run_code
exec code in run_globals
File "/apps/sci/20220324/lib/python2.7/site-packages/sci-0.1-py2.7.egg/sci/sci.py", line 112, in
run_sci()
File "/apps/sci/20220324/lib/python2.7/site-packages/sci-0.1-py2.7.egg/sci/sci.py", line 96, in run_sci
myobject.initialize(oArgs.genome_size)
File "/apps/sci/20220324/lib/python2.7/site-packages/sci-0.1-py2.7.egg/sci/hic.py", line 37, in initialize
for j in range(self.dChrBins[chrom]):
KeyError: 'chr1'


my chromosome names are; 2L 2R 3L 3R 4 X and Y
do you have suggestions?
thanks

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