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ERROR-get_tx_seq : No genes were found on chromosomes defined in fasta file. #180
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Hi Yasmina, |
Also, you forgot to paste the error message. |
oh yes sorry, 1- my lines start by > (I did'nt paste it) :
2- the error message is the same in the subject : |-- 16:50-ERROR-get_tx_seq : No genes were found on chromosomes defined in fasta file. |
Ah yes, this error is handled. Maybe this is a story about a file having
chr prefix not found in the other file ?
Denis
Le ven. 31 mars 2023 à 16:51, Yasmina Kermezli ***@***.***> a
écrit :
… oh yes sorry,
1- my lines start by > (I did'nt paste it) :
1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
2- the error message is the same in the subject :
|-- 16:50-ERROR-get_tx_seq : No genes were found on chromosomes defined in
fasta file.
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Yes I found it Thanks Denis! |
I will reopen it as it should not complain for additional chromose in the fasta file (but for additional chromosome in the gtf file). |
Hi,
I'm using the get_tx_seq function from gtftk and I'm getting this error
Here the header of my genome_fasta.fa file :
to test that I deleted headers after chr [dna:chromosome chromosome:GRCm38:1:1:195471971:1 REF] but still getting the same error
Any help/suggestion ?
Thank you
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