install error and plot error #146
Description
install error log
$ pip install misopy
Requirement already satisfied: misopy in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (0.5.4)
Requirement already satisfied: scipy>=0.9.0 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from misopy) (1.10.0)
Requirement already satisfied: pysam>=0.6.0 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from misopy) (0.17.0)
Requirement already satisfied: matplotlib in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from misopy) (3.6.3)
Requirement already satisfied: numpy>=1.5.0 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from misopy) (1.23.5)
Requirement already satisfied: cycler>=0.10 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from matplotlib->misopy) (0.11.0)
Requirement already satisfied: pillow>=6.2.0 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from matplotlib->misopy) (9.0.1)
Requirement already satisfied: packaging>=20.0 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from matplotlib->misopy) (21.3)
Requirement already satisfied: pyparsing>=2.2.1 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from matplotlib->misopy) (3.0.4)
Requirement already satisfied: python-dateutil>=2.7 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from matplotlib->misopy) (2.8.2)
Requirement already satisfied: contourpy>=1.0.1 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from matplotlib->misopy) (1.0.7)
Requirement already satisfied: fonttools>=4.22.0 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from matplotlib->misopy) (4.25.0)
Requirement already satisfied: kiwisolver>=1.0.1 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from matplotlib->misopy) (1.3.2)
Requirement already satisfied: six>=1.5 in /Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages (from python-dateutil>=2.7->matplotlib->misopy) (1.16.0)
$ miso
Traceback (most recent call last):
File "/Parastor300s_G30S/zhangjj/software/miniconda3/bin/miso", line 5, in
from misopy.miso import main
File "/Parastor300s_G30S/zhangjj/software/miniconda3/lib/python3.9/site-packages/misopy/miso.py", line 62
print "MISO (Mixture of Isoforms model)"
^
SyntaxError: invalid syntax
plot error log
AS]$ rmats2sashimiplot --b1 13.bam,17.bam,9.bam,11.bam,19.bam --b2 1.bam,3.bam,7.bam,5.bam,20.bam -o rmats2sashimiplot_out -c chrX:+:67544021:67730619:/Parastor300s_G30S/zhangjj/genome/hg38/gencode.v40.annotation.gff3 --l1 delP4.post --l2 delP4.pre --exon_s 1 --intron_s 5
'13.bam' seems to be indexed already. Please Check out this index file '13.bam.bai'
'17.bam' seems to be indexed already. Please Check out this index file '17.bam.bai'
'9.bam' seems to be indexed already. Please Check out this index file '9.bam.bai'
'11.bam' seems to be indexed already. Please Check out this index file '11.bam.bai'
'19.bam' seems to be indexed already. Please Check out this index file '19.bam.bai'
'1.bam' seems to be indexed already. Please Check out this index file '1.bam.bai'
'3.bam' seems to be indexed already. Please Check out this index file '3.bam.bai'
'7.bam' seems to be indexed already. Please Check out this index file '7.bam.bai'
'5.bam' seems to be indexed already. Please Check out this index file '5.bam.bai'
'20.bam' seems to be indexed already. Please Check out this index file '20.bam.bai'
'<' not supported between instances of 'int' and 'str'
There is an exception in plot_with_coordinate