./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory

[hannahdevens]

Hi, when I run the test command, I keep getting the notification "sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory" . The command never finishes successfully, so I'm assuming there is an issue with satsuma_run.sh not being a directory. Below is the read out I get. Any idea what is going wrong?

SATSUMA: Welcome to SatsumaSynteny! Current date and time: 2022/12/04 18:58:25
Path for Satsuma2: './bin/SatsumaSynteny2'
Creating directory xcorr_sample_synt
Executing bin/SatsumaSynteny2
Setting up grid.
Preparing...
select=0 chunks=261
chunks: 261
select=0 chunks=245
chunks: 245
size x=11 y=11 size=121
Initializing multimatches...
Done.
SATSUMA: Acquiring seeds, date and time: 2022/12/04 18:58:26
Running seed pre-filter:
./bin/SatsumaSynteny2/KMatch samples/human.X.part.fasta samples/dog.X.part.fasta 11 xcorr_sample_synt/kmatch_results.k11 11 10 1; touch xcorr_sample_synt/kmatch_results.k11.finished
sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory
Running seed pre-filter:
./bin/SatsumaSynteny2/KMatch samples/human.X.part.fasta samples/dog.X.part.fasta 13 xcorr_sample_synt/kmatch_results.k13 13 12 1; touch xcorr_sample_synt/kmatch_results.k13.finished
sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory
Running seed pre-filter:
./bin/SatsumaSynteny2/KMatch samples/human.X.part.fasta samples/dog.X.part.fasta 15 xcorr_sample_synt/kmatch_results.k15 15 14 1; touch xcorr_sample_synt/kmatch_results.k15.finished
sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory
Running seed pre-filter:
./bin/SatsumaSynteny2/KMatch samples/human.X.part.fasta samples/dog.X.part.fasta 17 xcorr_sample_synt/kmatch_results.k17 17 16 1; touch xcorr_sample_synt/kmatch_results.k17.finished
sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory
Running seed pre-filter:
./bin/SatsumaSynteny2/KMatch samples/human.X.part.fasta samples/dog.X.part.fasta 19 xcorr_sample_synt/kmatch_results.k19 19 18 1; touch xcorr_sample_synt/kmatch_results.k19.finished
sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory
Running seed pre-filter:
./bin/SatsumaSynteny2/KMatch samples/human.X.part.fasta samples/dog.X.part.fasta 21 xcorr_sample_synt/kmatch_results.k21 21 20 1; touch xcorr_sample_synt/kmatch_results.k21.finished
sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory
Running seed pre-filter:
./bin/SatsumaSynteny2/KMatch samples/human.X.part.fasta samples/dog.X.part.fasta 23 xcorr_sample_synt/kmatch_results.k23 23 22 1; touch xcorr_sample_synt/kmatch_results.k23.finished
sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory
Running seed pre-filter:
./bin/SatsumaSynteny2/KMatch samples/human.X.part.fasta samples/dog.X.part.fasta 25 xcorr_sample_synt/kmatch_results.k25 25 24 1; touch xcorr_sample_synt/kmatch_results.k25.finished
sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory
Running seed pre-filter:
./bin/SatsumaSynteny2/KMatch samples/human.X.part.fasta samples/dog.X.part.fasta 27 xcorr_sample_synt/kmatch_results.k27 27 26 1; touch xcorr_sample_synt/kmatch_results.k27.finished
sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory
Running seed pre-filter:
./bin/SatsumaSynteny2/KMatch samples/human.X.part.fasta samples/dog.X.part.fasta 29 xcorr_sample_synt/kmatch_results.k29 29 28 1; touch xcorr_sample_synt/kmatch_results.k29.finished
sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory
Running seed pre-filter:
./bin/SatsumaSynteny2/KMatch samples/human.X.part.fasta samples/dog.X.part.fasta 31 xcorr_sample_synt/kmatch_results.k31 31 30 1; touch xcorr_sample_synt/kmatch_results.k31.finished
sh: ./bin/SatsumaSynteny2/satsuma_run.sh: Not a directory
Waiting for seed pre-filters...