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gt1 / biobambam2

Tools for early stage alignment file processing
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Invalid alignment: Query name contains illegal symbols #61

Open mmokrejs opened 6 years ago

mmokrejs commented 6 years ago

Hi, could the following error message be improved to print out the "wrong" query name?

bamsort SO=coordinate blockmb=96000 inputthreads=1 outputthreads=1 level=9 index=1 I=tadpole.k62.shave.rinse.bam O=tadpole.k62.shave.rinse.sorted.bam
[V] Reading alignments from source.
Invalid alignment: Query name contains illegal symbols

/apps/gentoo/usr/lib64/libmaus2.so.2(libmaus2::util::StackTrace::StackTrace()+0x55)[0x7ffff78257e5]
bamsort(libmaus2::exception::LibMausException::LibMausException()+0x20)[0x41e0f0]
bamsort()[0x44967a]
bamsort()[0x4188c8]
bamsort()[0x4124de]
/apps/gentoo/lib64/libc.so.6(__libc_start_main+0xf1)[0x7ffff5ff75f1]
bamsort()[0x4134ea]