I am newbie to linux and NGS. Whle trying to build an index with hisat2 for my project, im getting following error:
"Error: could not open 2.fa
Total time for call to driver() for forward index: 00:00:00
Error: Encountered internal HISAT2 exception (#1)
Command: hisat2-build --wrapper basic-0"
the command and output of the terminal is as follows:
./hisat2-build /data/memona/reference/1.fa,2.fa,3.fa,4.fa,5.fa,6.fa,7.fa,8.fa,9.fa,10.fa,11.fa,12.fa,13.fa hisat_index
Settings:
Output files: "hisat_index.*.ht2"
Line rate: 6 (line is 64 bytes)
Lines per side: 1 (side is 64 bytes)
Offset rate: 4 (one in 16)
FTable chars: 10
Strings: unpacked
Local offset rate: 3 (one in 8)
Local fTable chars: 6
Local sequence length: 57344
Local sequence overlap between two consecutive indexes: 1024
Endianness: little
Actual local endianness: little
Sanity checking: disabled
Assertions: disabled
Random seed: 0
Sizeofs: void*:8, int:4, long:8, size_t:8
Input files DNA, FASTA:
/data/memona/reference/1.fa
2.fa
3.fa
4.fa
5.fa
6.fa
7.fa
8.fa
9.fa
10.fa
11.fa
12.fa
13.fa
Error: could not open 2.fa
Total time for call to driver() for forward index: 00:00:00
Error: Encountered internal HISAT2 exception (#1)
Command: hisat2-build --wrapper basic-0 /data/memona/reference/1.fa,2.fa,3.fa,4.fa,5.fa,6.fa,7.fa,8.fa,9.fa,10.fa,11.fa,12.fa,13.fa hisat_index
the hisat2-build file have all the permissions
-rwxrwxrwx 1 memona memona 2807 Mar 12 2016 hisat2-build
need kind help to resolve the issue