Hi everyone,
I've found a lot's of discussion about this problem, but haven't found the
solution.
I got this error:
*[E::hts_hopen] fail to open file
'less_stringent_Ha412-34CDSHa.sorted.bam.bai'*
*[E::hts_open] fail to open file
'less_stringent_Ha412-34CDSHa.sorted.bam.bai'*
*samtools: failed to open "less_stringent_Ha412-34CDSHa.sorted.bam.bai" for
reading: Success*
When I read the sorted.bam file like that:
-bash-4.1$ samtools view less_stringent_Ha412-34CDSHa.sorted.bam.bai
Actually I've done a bwa mapping, and trying to see my mapping results in
IGV, so need to have sorted and indexed files of bam.
So got these:
-rw-rw-r-- 1 nandy inra 124K May 19 10:33 less_stringent_Ha412-34CDSHa.sam
-rw-rw-r-- 1 nandy inra 174K May 19 11:21 less_stringent_Ha412-34CDSHa.bam
-rw-rw-r-- 1 nandy inra 18K May 19 11:22
less_stringent_Ha412-34CDSHa.sorted.bam
-rw-rw-r-- 1 nandy inra 559K May 19 11:59
less_stringent_Ha412-34CDSHa.sorted.bam.bai
But when in IGV I gave the necessary there is no visualisation, so i think
it's maybe because of this error.
regards,
Siva
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