Primer design not working

[SheetalAmbardar]

SSR markers are identified but primer designing not working. Everytime you select any SSR marker, it shows the error
Here jcf7180029229335 is contig name
Traceback (most recent call last):
File "workers.py", line 113, in run
File "workers.py", line 457, in process
KeyError: 'jcf7180029229335 does not exist in fasta file'

[lmdu]

Can you send me your sequence file to me for debug.

[SheetalAmbardar]

Dear Dr. Lianming Du, Please find the attached file (3 GB in size), Kindly let me know once you download it, i will remove it from my drive space. I am able to identify SSR but not able to design primers, it will be great if you can help. cdat_masurca_scf.tar.xz <https://drive.google.com/file/d/1YcA4q9Xb7OrizNykK-G629OzTSITqaiJ/view?usp=drive_web> Regards *Sheetal Ambardar* Assistant Professor School of Biotechnology University of Jammu Jammu & Kashmir 180006

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On Mon, 11 Sept 2023 at 09:35, Lianming Du ***@***.***> wrote: Can you send me your sequence file to me for debug. — Reply to this email directly, view it on GitHub <#33 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/BCN7TN35VLTESCPZ4IIVSDLXZ2EXBANCNFSM6AAAAAA4QEBXUM> . You are receiving this because you authored the thread.Message ID: ***@***.***>

[lmdu]

Thanks! I have downloaded it.

[lmdu]

I have test Krait v1.5.1 using your data, it works well. You can delete the generated index file with extension of .fxi. And then redo search SSRs.

[SheetalAmbardar]

Dear Dr. Lianming Du, Thank you for analysing my sequences using krait. Were you able to design primers too. Regards *Sheetal Ambardar* Assistant Professor School of Biotechnology University of Jammu Jammu & Kashmir 180006

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On Mon, 11 Sept 2023 at 16:20, Lianming Du ***@***.***> wrote: I have test Krait using your data, it works well. You can delete the generated index file with extension of .fxi. And then redo search SSRs. — Reply to this email directly, view it on GitHub <#33 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/BCN7TN3KQTRPFCSYVD3JRPLXZ3UI5ANCNFSM6AAAAAA4QEBXUM> . You are receiving this because you authored the thread.Message ID: ***@***.***>

[lmdu]

Yes. Use Krait v1.5.1, and then delete the index file with the same name of sequence file with suffix of .fxi.

[SheetalAmbardar]

Thank you so much. It did worked with new version.

[SheetalAmbardar]

Thank you for troubleshooting this error.