[2018/01/24 02:36:15] Job was not submitted successfully
[2018/01/24 02:36:15] STDERR: sbatch: error: Batch job submission failed: Invalid job array specification
[2018/01/24 02:36:15] Submit scripts will be written, but will not be submitted to the queue.
[2018/01/24 02:36:15] Any pending jobs that depend upon this job will NOT be submitted to the queue.
[2018/01/24 02:36:15] Please look at your submission scripts in /scratch/cgsb/gencore/mk5636/biosails/variant_calling/test/hpc-runner/2018-01-24T02-35-01/biosailsvcf/scratch
[2018/01/24 02:36:15] And your logs in /scratch/cgsb/gencore/mk5636/biosails/variant_calling/test/hpc-runner/2018-01-24T02-35-01/biosailsvcf/logs/hpcrunner_logs
for more information
[2018/01/24 02:36:15] Task dependencies are not calculated until the end of submission ... please to do not exit unless you are sure!
[2018/01/24 02:36:15] Submitting all tabix_index_biox_stats job types
[2018/01/24 02:36:15] Trying to submit job tabix_index_biox_stats which depends upon tabix_index
[2018/01/24 02:36:15] Job tabix_index failed, so we are skipping this submission
[2018/01/24 02:36:15] Submitting all bcftools_filter job types
[2018/01/24 02:36:15] Trying to submit job bcftools_filter which depends upon tabix_index
[2018/01/24 02:36:15] Job tabix_index failed, so we are skipping this submission
[2018/01/24 02:36:15] Submitting all bcftools_filter_biox_stats job types
[2018/01/24 02:36:15] Trying to submit job bcftools_filter_biox_stats which depends upon bcftools_filter
[2018/01/24 02:36:15] Job bcftools_filter failed, so we are skipping this submission
[2018/01/24 02:36:15] Submitting all bcftools_stats job types
[2018/01/24 02:36:15] Trying to submit job bcftools_stats which depends upon tabix_index
[2018/01/24 02:36:15] Job tabix_index failed, so we are skipping this submission
[2018/01/24 02:36:15] Job was not submitted successfully
[2018/01/24 02:36:15] STDERR: sbatch: error: Batch job submission failed: Invalid job array specification
[2018/01/24 02:36:15] Submit scripts will be written, but will not be submitted to the queue.
[2018/01/24 02:36:15] Any pending jobs that depend upon this job will NOT be submitted to the queue.
[2018/01/24 02:36:15] Please look at your submission scripts in /scratch/cgsb/gencore/mk5636/biosails/variant_calling/test/hpc-runner/2018-01-24T02-35-01/biosailsvcf/scratch
[2018/01/24 02:36:15] And your logs in /scratch/cgsb/gencore/mk5636/biosails/variant_calling/test/hpc-runner/2018-01-24T02-35-01/biosailsvcf/logs/hpcrunner_logs
for more information
[2018/01/24 02:36:15] Task dependencies are not calculated until the end of submission ... please to do not exit unless you are sure!
[2018/01/24 02:36:15] Submitting all tabix_index_biox_stats job types
[2018/01/24 02:36:15] Trying to submit job tabix_index_biox_stats which depends upon tabix_index
[2018/01/24 02:36:15] Job tabix_index failed, so we are skipping this submission
[2018/01/24 02:36:15] Submitting all bcftools_filter job types
[2018/01/24 02:36:15] Trying to submit job bcftools_filter which depends upon tabix_index
[2018/01/24 02:36:15] Job tabix_index failed, so we are skipping this submission
[2018/01/24 02:36:15] Submitting all bcftools_filter_biox_stats job types
[2018/01/24 02:36:15] Trying to submit job bcftools_filter_biox_stats which depends upon bcftools_filter
[2018/01/24 02:36:15] Job bcftools_filter failed, so we are skipping this submission
[2018/01/24 02:36:15] Submitting all bcftools_stats job types
[2018/01/24 02:36:15] Trying to submit job bcftools_stats which depends upon tabix_index
[2018/01/24 02:36:15] Job tabix_index failed, so we are skipping this submission