When I run the phase1.sh, I met the above error. And I run Gtool, still have the same problem.
Note: phase0.sh runs normally.
(ginger) (ginger) Ginger$ /media/desk15/iyun3221/miniconda3/envs/ginger/bin/ginger-1.0.1/pipeline/phase0.sh ./nextflow.config
perl /media/desk15/iyun3221/miniconda3/envs/ginger/bin/ginger-1.0.1/pipeline/../util/merge_phase0/genConfigIniForMerge.pl ./nextflow.config > config.ini
RNA-seq mapping based
RNA-seq de novo based
Homology based
Ab initio based; Augustus
Ab initio based; SNAP
merging all gff
finished
(ginger) (ginger) Ginger$ /media/desk15/iyun3221/miniconda3/envs/ginger/bin/ginger-1.0.1/pipeline/phase1.sh nextflow.config > phase1.log /media/desk15/iyun3221/miniconda3/envs/ginger/bin/ginger-1.0.1/pipeline/phase1.sh: line 55: 1737020 Segmentation fault (core dumped) $Gtool -f $all > /dev/null (ginger) (ginger) Ginger$ Gtool=/media/desk15/iyun3221/miniconda3/envs/ginger/bin/ginger-1.0.1/util/merge_phase1/Grouping (ginger) (ginger) Ginger$ $Gtool -f ginger_all.gff START Grouping. Segmentation fault (core dumped)
When I run the phase1.sh, I met the above error. And I run Gtool, still have the same problem.
Note: phase0.sh runs normally. (ginger) (ginger) Ginger$ /media/desk15/iyun3221/miniconda3/envs/ginger/bin/ginger-1.0.1/pipeline/phase0.sh ./nextflow.config perl /media/desk15/iyun3221/miniconda3/envs/ginger/bin/ginger-1.0.1/pipeline/../util/merge_phase0/genConfigIniForMerge.pl ./nextflow.config > config.ini RNA-seq mapping based RNA-seq de novo based Homology based Ab initio based; Augustus Ab initio based; SNAP merging all gff finished