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Old 08-21-2019, 08:26 PM   #1
titaji
Junior Member
 
Location: Bangkok, Thailand

Join Date: Aug 2019
Posts: 2
Default Primer3 issue

Dear all

I'm new here and I have a problem with Primer3 program.

I'm using MISA and Primer3 in pipeline. After I got *.misa file, I put this syntax.

Code:
p3_in.pl FASTA.fa.misa
Then I got empty file of *.p3in. Is it normal?

By the way, I still tried to run further syntax.

Code:
primer3_core < FASTA.fa.p3in > FASTA.fa.p3out
This one showed me the description and usage of Primer3.

I put further syntax which is...

Code:
p3_out.pl FASTA.fa.p3out FASTA.fa.misa
It showed the error message like this.

Quote:
Use of uninitialized value $count in concatenation (.) or string at C:\Users\admin\Documents\Work\NGS_results\MISA\p3_out.pl line 76.

Primer modelling was successful for sequences.
Use of uninitialized value $count_failed in concatenation (.) or string at C:\Users\admin\Documents\Work\NGS_results\MISA\p3_out.pl line 77.
Primer modelling failed for sequences.
Could anyone please help me to solve this issue?

Thank you,
titaji
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misa, primer, primer3, primer3in

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