Aligngraph comes back with 'CANNOT OPEN FILE!'

[lulux719]

I'm dealing with paired end E.coli re-sequencing data. Assembly was done using SPAdes.

When I tried to further align my contigs with Aligngraph, It always comes back with 'CANNOT OPEN FILE!' without any other information

My command:

~/files/AlignGraph/AlignGraph/AlignGraph --read1 97_1.fasta --read2 97_2.fasta --contig scaffolds_97.fasta --genome LF82.fasta  --distanceLow -700 --distanceHigh 1300 --extendedContig 97_extendedContigs.fa --remainingContig 97_remainingContigs.fa

What could be the causing this problem and how can I fix this?

Thank you for any suggestion!!

[baoe]

Hi,

Sorry for reply late. The reason should be some file does not exist or there is something wrong with the file name or directory.

Bao