Hello, I'm setting up my PC to install pysam and deeptools.

1. Ubuntu 16.04LTS
2. pip install deeptools
3. #python
4. >>>import pysam
5. >>>print pysam.__version__
6. 0.9.1.4
7. >>>cn = pysam.view("-F4","-c",'./testbam.bam');
8. Segmentation fault ( core dumped )

this is an error. So I tried other way to install pysam.

1. pip uninstall pysam
2. apt-get install python-pysam
3. #python
4. >>>import pysam
5. >>> print pysam.__version__
6. 0.7.7
7. >>>cn = pysam.view("-F4","-c",'./testbam.bam');
8. >>>

I thought I solved but other error appear in deeptools

1. #computeGCBias --numberOfProcessors 16 --fragmentLength 160 --bamfile IonXpress_001_rawlib.bam --effectiveGenomeSize 2451960000 --genome /hprnd0001/hg19fa/hg19fa/hg19.2bit --GCbiasFrequenciesFile frequencies.txt --plotFileFormat png --biasPlot plot --regionSize 200
2. AttributeError: 'pysam.csamtools.AlignedRead' object has no attribute 'get_tags'

So I back to install pysam again.

1. #pip install --upgrade pysam

then pysam version back to 0.9.1.4. And I did excute again "computeGCBias" command. and it is done well.

But first problem appeared again.(pysam's execution return "Segmentation Fault ( core dumped )"

my python version is 2.7.11. How can I solve this? Or is there a way to install pysam and deeptools well?

Please help me...