CAP3 for DNA assembly

Question

[dhananya]

I'm using CAP3 for 1st time, I have checked tutorial and gave input file "genome.fasta" as shown below. I have used the below command to run:

cap3 genome.fasta > output.txt 

I got error: Cannot open genome.fasta.

Can anyone pls help to solve this?

>scaffold00017
ATATAAAGCATAAATCGATTAGAAATGAAACCTTCTCAAATCATGAATAagaataatattcttcTAAATGAAGATAAGATTGATCCTAAAGATCTTATGATATTAAAATTAGTAAAAGAATCAGGATAATCTGAATACCGCCGAGGTATTCCATTTAACCCTAAAAAATGTTGAGGAAAAAAAGTCAAATTAACACCTAAAAACATCACTAAAAATTGAGTTTTAAGCACTATTTCATTAAAAGAGATACCAAAAAGTGTTGGAAATCAAAAAGTTACTGCTCCAAAAATAGCAAAAACTGCTCCTATAGATAATACATAATGAAAATGAGCTACTACGTAATAAGTATCATGAAGAATAATATCAATTGAAGAATTAGATAATATAATACCAGTTAATCCCCCCAACGTGAATAAAAataaaaatCCTAAACATCATAATATAGGAGAAT
>scaffold0001
AATATAATTATATATTTACCTGCTCCTTCAAATATCAATTATTTTTGAAACTTAGGGTCTCTTATTGGGATCATATTAATAATTCAAATCGTTTCTGGTTtttttttATCTCTTCATTACTTGTCTTCTATAGAAGAAGCTTTTTATTCAGTTAATCATATCAGCCGAGAAGTATATATAGGGTGATTAGTTCGATTTTTTCATATCAATGGAGCATCGGCTTTTttctttttgattttttctcatattttaaaAAACATTATAAACTCATCATGAAAGTTTACTAATCTGTGAATATCAGGGGTAACCATTCTATTGATTTCTATAGCAACAGCTTTTGTAGGATATGTTTTACCATGAGGCCAAATATCTTTTTGAGCAGCTACTGTAATTACTAATTTAT
>scaffold00011
CCAATATACCAGTAAAAACaaatataatcaa

[lieven.sterck]

Hello dhananya,

Welcome to the forum.

Please use the formatting bar (especially the code option) to present your post better. I've done it for you this time.

Thank you!

[Pierre Lindenbaum]

output of ls -lah genome.fa ?

[dhananya]

yes.

[GenoMax]

Show actual output. yes is not expected output of the command @Pierre asked for.

[lieven.sterck]

How is that fasta file you show there called? if it's not genome.fasta you will need to give it the name the file has in your case.

[dhananya]

Thank you. Yes I gave name as genome.fasta