Hi all,
I am trying to convert a sorted .bam file back into a .sam file for downstream programs
but when I run the command:
samtools view -h in_sorted.bam > out_sorted.sam
I get the error:
zsh: segmentation fault samtools view -h in_sorted.bam > out_sorted.sam
I am on a Ubuntu 12.04 desktop machine (BioLinux), with 8 GB RAM and 1 TB Hard-disk space.
I could convert from a .sam file to a .bam file through samtools sort to get the sorted .bam file on the same machine so I don't think I'm running out of memory.
I wonder if anyone could help me figure out what is going wrong.
I am trying to convert a sorted .bam file back into a .sam file for downstream programs
but when I run the command:
samtools view -h in_sorted.bam > out_sorted.sam
I get the error:
zsh: segmentation fault samtools view -h in_sorted.bam > out_sorted.sam
I am on a Ubuntu 12.04 desktop machine (BioLinux), with 8 GB RAM and 1 TB Hard-disk space.
I could convert from a .sam file to a .bam file through samtools sort to get the sorted .bam file on the same machine so I don't think I'm running out of memory.
I wonder if anyone could help me figure out what is going wrong.
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