[vg autoindex] Executing command: vg autoindex --workflow giraffe -r /public/home/ahmad/outdir/in.fa.gz.bf3285f.11fba48.11fe66b.smooth.final.gfa -v /public/home/ahmad/outdir/in.fa.gz.bf3285f.11fba48.11fe66b.smooth.final.RAlphonso.vcf -p pangenome
[IndexRegistry]: Checking for phasing in VCF(s).
[IndexRegistry]: Chunking inputs for parallelism.
index file /public/home/ahmad//outdir/in.fa.gz.bf3285f.11fba48.11fe66b.smooth.final.gfa.fai not found, generating...
ERROR: mismatched line lengths at line 3 within sequence
File not suitable for fasta index generation. Note the GFA file was obtained as a result of pggb run ( partition-before-pggb -i /public/home/ahmad/pangen/in.fa.gz \
-o /public/home/ahmad/outdir \
-n 5 \
-t 15 \
-p 90 \
-s 5k \
-V 'R:1000'). Here are more details of the file for consideration awk '{print length($0)}' /public/home/ahmad/outdir/in.fa.gz.bf3285f.11fba48.11fe66b.smooth.final.gfa
9
20
196
20
20
9
20
9
20
179
20
20
9
20
9
20
17
20
20
9
20
9
20
130
How to fix this issue?
[vg autoindex] Executing command: vg autoindex --workflow giraffe -r /public/home/ahmad/outdir/in.fa.gz.bf3285f.11fba48.11fe66b.smooth.final.gfa -v /public/home/ahmad/outdir/in.fa.gz.bf3285f.11fba48.11fe66b.smooth.final.RAlphonso.vcf -p pangenome [IndexRegistry]: Checking for phasing in VCF(s). [IndexRegistry]: Chunking inputs for parallelism. index file /public/home/ahmad//outdir/in.fa.gz.bf3285f.11fba48.11fe66b.smooth.final.gfa.fai not found, generating... ERROR: mismatched line lengths at line 3 within sequence File not suitable for fasta index generation. Note the GFA file was obtained as a result of pggb run ( partition-before-pggb -i /public/home/ahmad/pangen/in.fa.gz \ -o /public/home/ahmad/outdir \ -n 5 \ -t 15 \ -p 90 \ -s 5k \ -V 'R:1000'). Here are more details of the file for consideration awk '{print length($0)}' /public/home/ahmad/outdir/in.fa.gz.bf3285f.11fba48.11fe66b.smooth.final.gfa 9 20 196 20 20 9 20 9 20 179 20 20 9 20 9 20 17 20 20 9 20 9 20 130 How to fix this issue?