Binsanit-profile GZIP error -2

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sumavsu...@gmail.com

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Aug 9, 2018, 2:58:09 AM8/9/18
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Hi. I a working on a metagenomic data. I used Megahit to assemble the reads. I ran get-id to get the id.txt file and tried running Binsanity-profile for obtaining the coverage file. I used bbmap to generate the sam/bam file for input to Binsanity-profile. I am getting  "GZIP ERROR:-2" (Please find the screen shot attached) when i try to run the Binsanity-profile. The saf file is getting generated but coverage file is not generated.

 I checked the featurecount program and it looks working fine for me.

To get id.txt:
get-ids -f /media/rvcebt/Transcend/varun -l megahit.contigs.fa -o megahit_id

Here is the command i used:
./Binsanity-profile -i /media/rvcebt/Transcend/varun/Assemblers/megahit.contigs.fa -s /media/rvcebt/Transcend/varun/ --id megahit_id.txt -c megahit_coverage

I am unable to figure out what is causing the error. Any aid to resolve this will be really helpful !!

Thanks in advance.


Screenshot from 2018-08-09 12-26-03.png

egrah...@gmail.com

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Oct 5, 2018, 5:16:03 PM10/5/18
to sumavsu...@gmail.com, BinSanity
This error seems to be indicating that one or more of the files the program is reading are in a compressed gzip format and shouldn’t be. Have you checked that nothing is compressed? 

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