Last active
August 29, 2015 14:08
-
-
Save natefoo/ac47dc0f8bc1291fe331 to your computer and use it in GitHub Desktop.
over mem jobs
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| % sacct -u g2main -L -s CA -S 2014-10-01 -E now -o 'jobname%-128' -X -n | cut -d_ -f1 | tr -d '^g' | (echo -n "select tool_id,count(tool_id) ct from job where id in("; while read jobid; do [[ $jobid =~ ^-?[0-9]+$ ]] && echo -n "$c$jobid"; c=','; done; echo ") and state='error' group by tool_id order by ct") | psql galaxy_main | |
| tool_id | ct | |
| ---------------------------------------------------------------------------------------------------+---- | |
| toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_tabular/fastq_to_tabular/1.1.0 | 1 | |
| toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1/1.0.0 | 1 | |
| toolshed.g2.bx.psu.edu/repos/devteam/flanking_features/flanking_features_1/4.0.1 | 1 | |
| Extract genomic DNA 1 | 1 | |
| gff2bed1 | 1 | |
| toolshed.g2.bx.psu.edu/repos/devteam/get_flanks/get_flanks1/1.0.0 | 1 | |
| toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: cpgreport16/5.0.0 | 1 | |
| toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicardMarkDups/1.56.0 | 1 | |
| echo_main_w1_handler2 | 1 | |
| toolshed.g2.bx.psu.edu/repos/devteam/subtract_query/subtract_query1/0.1 | 1 | |
| toolshed.g2.bx.psu.edu/repos/devteam/megablast_wrapper/megablast_wrapper/1.2.0 | 1 | |
| toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ARRG/1.56.0 | 1 | |
| liftOver1 | 1 | |
| Paste1 | 1 | |
| toolshed.g2.bx.psu.edu/repos/devteam/sam_pileup/sam_pileup/1.1.2 | 1 | |
| ucsc_table_direct1 | 1 | |
| cat1 | 1 | |
| toolshed.g2.bx.psu.edu/repos/devteam/table_recalibration/gatk_table_recalibration/0.0.5 | 2 | |
| toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/0.0.7 | 2 | |
| toolshed.g2.bx.psu.edu/repos/devteam/count_covariates/gatk_count_covariates/0.0.5 | 2 | |
| ebi_sra_main | 2 | |
| Filter1 | 2 | |
| toolshed.g2.bx.psu.edu/repos/devteam/fastx_collapser/cshl_fastx_collapser/1.0.0 | 2 | |
| toolshed.g2.bx.psu.edu/repos/devteam/fastq_groomer/fastq_groomer/1.0.4 | 2 | |
| toolshed.g2.bx.psu.edu/repos/devteam/varscan_version_2/varscan/0.1 | 2 | |
| toolshed.g2.bx.psu.edu/repos/devteam/clustalw/clustalw/0.1 | 2 | |
| CONVERTER_gff_to_interval_index_0 | 3 | |
| toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: needle56/5.0.0 | 3 | |
| toolshed.g2.bx.psu.edu/repos/devteam/variant_recalibrator/gatk_variant_recalibrator/0.0.4 | 3 | |
| toolshed.g2.bx.psu.edu/repos/devteam/t2ps/Draw_phylogram/1.0.0 | 3 | |
| toolshed.g2.bx.psu.edu/repos/devteam/lastz/lastz_wrapper_2/1.2.2 | 3 | |
| CONVERTER_gff_to_fli_0 | 3 | |
| toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: water107/5.0.0 | 4 | |
| toolshed.g2.bx.psu.edu/repos/devteam/depth_of_coverage/gatk_depth_of_coverage/0.0.2 | 4 | |
| CONVERTER_bed_to_fli_0 | 4 | |
| Interval2Maf1 | 5 | |
| upload1 | 5 | |
| CONVERTER_bedgraph_to_bigwig | 6 | |
| toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SamToFastq/1.56.1 | 6 | |
| toolshed.g2.bx.psu.edu/repos/devteam/indel_realigner/gatk_indel_realigner/0.0.6 | 6 | |
| toolshed.g2.bx.psu.edu/repos/devteam/tophat2/tophat2/0.6 | 7 | |
| toolshed.g2.bx.psu.edu/repos/devteam/gi2taxonomy/Fetch Taxonomic Ranks/1.1.0 | 7 | |
| toolshed.g2.bx.psu.edu/repos/devteam/fastq_paired_end_joiner/fastq_paired_end_joiner/1.0.0 | 8 | |
| toolshed.g2.bx.psu.edu/repos/devteam/realigner_target_creator/gatk_realigner_target_creator/0.0.4 | 9 | |
| toolshed.g2.bx.psu.edu/repos/aaronquinlan/bedtools/bedtools_coveragebed_counts/0.1.0 | 10 | |
| comp1 | 13 | |
| join1 | 14 | |
| toolshed.g2.bx.psu.edu/repos/devteam/unified_genotyper/gatk_unified_genotyper/0.0.6 | 24 | |
| wig_to_bigWig | 46 | |
| toolshed.g2.bx.psu.edu/repos/devteam/join/gops_join_1/1.0.0 | 66 | |
| (50 rows) |
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment