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Old 09-11-2019, 07:44 AM   #5
Junior Member
Location: Brazil

Join Date: Aug 2019
Posts: 7

I tried to execute the command and the following message appeared. Do you know how I can solve this?
/media/lucasmalzoni/Seagate Backup Plus Drive1/Joao/MT/02-Bam$ in=${i}.bam out=${i}.fa
java -ea -Xms300m -cp /home/lucasmalzoni/anaconda3/opt/bbmap-38.67-0/current/ jgi.ReformatReads in=.bam out=.fa
Executing jgi.ReformatReads [in=.bam, out=.fa]

Exception in thread "main" java.lang.RuntimeException: Can't read file '.bam'
at shared.Tools.testInputFiles(
at jgi.ReformatReads.<init>(
at jgi.ReformatReads.main(
(base) lucasmalzoni@galton:/media/lucasmalzoni/Seagate Backup Plus Drive1/Joao/MT/02-Bam$
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