SABER Dashboard

Servers and Compute IDs

Summary

Test run: Oct 22, 2025 01:25
Test are run daily

Pulsar Endpoint Galaxy Server Status
it-pulsar usegalaxy_it
it03-pulsar
Default

Server: usegalaxy_it

Compute ID: it-pulsar

Successful Jobs: 2 Failed Jobs: 0 Running Jobs: 0 New Jobs: 0 Queued Jobs: 0 Waiting Jobs: 0
Successful Jobs 2
Failed Jobs 0
Running Jobs 0
New Jobs 0
Queued Jobs 0
Waiting Jobs 0

Successful Jobs

Job ID: 5d31a77db7e40245 (Status: ok)

Tool: toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.74+galaxy1

Galaxy v24.2 Created: 2025-10-22 01:33:11.284297 Updated: 2025-10-22 01:35:55.688871

Job Information

History ID 61ed17066aa93144
Exit Code 0
Command Line
ln -s '/data/share/it01/staging/6079/inputs/dataset_232aecb6-e268-4f98-90c2-5cc9d28b2302.dat' '1_reads' && mkdir -p '/data/share/it01/staging/6079/outputs/dataset_803509d8-0d2b-4e4a-984b-2c60b63e5d89_files' && fastqc --outdir '/data/share/it01/staging/6079/outputs/dataset_803509d8-0d2b-4e4a-984b-2c60b63e5d89_files' --threads ${GALAXY_SLOTS:-2} --dir ${TEMP:-$_GALAXY_JOB_TMP_DIR} --quiet --extract --kmers 7 -f 'fastq' '1_reads' && cp '/data/share/it01/staging/6079/outputs/dataset_803509d8-0d2b-4e4a-984b-2c60b63e5d89_files'/*/fastqc_data.txt output.txt && cp '/data/share/it01/staging/6079/outputs/dataset_803509d8-0d2b-4e4a-984b-2c60b63e5d89_files'/*\.html output.html

Job Metrics

Metric Value
Container ID /cvmfs/singularity.galaxyproject.org/all/fastqc:0.12.1--hdfd78af_0
Container Type singularity
Cores Allocated 1
Memory Allocated (MB) 5734
Job Start Time 2025-10-22 01:31:45
Job End Time 2025-10-22 01:31:59
Job Runtime (Wall Clock) 14 seconds

Inputs & Outputs

Type Name ID UUID
Input input_file 85cc1b5c464c1c81 232aecb6-e268-4f98-90c2-5cc9d28b2302
Output html_file 7256e17802af677d 803509d8-0d2b-4e4a-984b-2c60b63e5d89
Output text_file 491367e9e31f7380 7d7856a6-c7db-4a69-8868-3e9e01d49612

Job ID: 9ad0381c5609e98f (Status: ok)

Tool: toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy1

Galaxy v24.2 Created: 2025-10-22 01:33:11.398202 Updated: 2025-10-22 01:35:42.622850

Job Information

History ID 61ed17066aa93144
Exit Code 0
Command Line
set -o | grep -q pipefail && set -o pipefail; ln -f -s '/data/share/it01/staging/6080/inputs/dataset_232aecb6-e268-4f98-90c2-5cc9d28b2302.dat' input_f.fastq && THREADS=${GALAXY_SLOTS:-4} && if [ "$THREADS" -gt 1 ]; then (( THREADS-- )); fi && bowtie2 -p "$THREADS" -x '/cvmfs/data.galaxyproject.org/managed/bowtie2_index/sacCer3/sacCer3' -U 'input_f.fastq' | samtools sort -l 0 -T "${TMPDIR:-.}" -O bam | samtools view --no-PG -O bam -@ ${GALAXY_SLOTS:-1} -o '/data/share/it01/staging/6080/outputs/dataset_ec942ef5-7ff0-4ee0-90b9-bb7c2787991e.dat'

Job Metrics

Metric Value
Container ID /cvmfs/singularity.galaxyproject.org/all/mulled-v2-c742dccc9d8fabfcff2af0d8d6799dbc711366cf:a2e4688a25bd1726a756713d5233a63a5ac7f597-0
Container Type singularity
Cores Allocated 1
Memory Allocated (MB) 20480
Job Start Time 2025-10-22 01:31:02
Job End Time 2025-10-22 01:31:45
Job Runtime (Wall Clock) 43 seconds

Inputs & Outputs

Type Name ID UUID
Input library|input_1 85cc1b5c464c1c81 232aecb6-e268-4f98-90c2-5cc9d28b2302
Output output 6c2e8112c9a7df5e ec942ef5-7ff0-4ee0-90b9-bb7c2787991e

Failed Jobs

No failed jobs found.

Running Jobs

No running jobs found.

New Jobs

No new jobs found.

Queued Jobs

No queued jobs found.

Waiting Jobs

No waiting jobs found.

Compute ID: it03-pulsar

Successful Jobs: 2 Failed Jobs: 0 Running Jobs: 0 New Jobs: 0 Queued Jobs: 0 Waiting Jobs: 0
Successful Jobs 2
Failed Jobs 0
Running Jobs 0
New Jobs 0
Queued Jobs 0
Waiting Jobs 0

Successful Jobs

Job ID: dfea84785031d1be (Status: ok)

Tool: toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy1

Galaxy v24.2 Created: 2025-10-22 01:33:17.684461 Updated: 2025-10-22 01:35:46.636692

Job Information

History ID 61ed17066aa93144
Exit Code 0
Command Line
set -o | grep -q pipefail && set -o pipefail; ln -f -s '/data/share/it/staging/6082/inputs/dataset_232aecb6-e268-4f98-90c2-5cc9d28b2302.dat' input_f.fastq && THREADS=${GALAXY_SLOTS:-4} && if [ "$THREADS" -gt 1 ]; then (( THREADS-- )); fi && bowtie2 -p "$THREADS" -x '/cvmfs/data.galaxyproject.org/managed/bowtie2_index/sacCer3/sacCer3' -U 'input_f.fastq' | samtools sort -l 0 -T "${TMPDIR:-.}" -O bam | samtools view --no-PG -O bam -@ ${GALAXY_SLOTS:-1} -o '/data/share/it/staging/6082/outputs/dataset_9d394dfc-b49d-443a-ae34-d0eddcd915ca.dat'

Job Metrics

Metric Value
Container ID /cvmfs/singularity.galaxyproject.org/all/mulled-v2-c742dccc9d8fabfcff2af0d8d6799dbc711366cf:a2e4688a25bd1726a756713d5233a63a5ac7f597-0
Container Type singularity

Inputs & Outputs

Type Name ID UUID
Input library|input_1 85cc1b5c464c1c81 232aecb6-e268-4f98-90c2-5cc9d28b2302
Output output 1cb1a28d0b70fafe 9d394dfc-b49d-443a-ae34-d0eddcd915ca

Job ID: a311194dece1f0ea (Status: ok)

Tool: toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.74+galaxy1

Galaxy v24.2 Created: 2025-10-22 01:33:17.596173 Updated: 2025-10-22 01:35:12.497230

Job Information

History ID 61ed17066aa93144
Exit Code 0
Command Line
ln -s '/data/share/it/staging/6081/inputs/dataset_232aecb6-e268-4f98-90c2-5cc9d28b2302.dat' '1_reads' && mkdir -p '/data/share/it/staging/6081/outputs/dataset_43a35864-3982-4169-bd7e-da00571c345b_files' && fastqc --outdir '/data/share/it/staging/6081/outputs/dataset_43a35864-3982-4169-bd7e-da00571c345b_files' --threads ${GALAXY_SLOTS:-2} --dir ${TEMP:-$_GALAXY_JOB_TMP_DIR} --quiet --extract --kmers 7 -f 'fastq' '1_reads' && cp '/data/share/it/staging/6081/outputs/dataset_43a35864-3982-4169-bd7e-da00571c345b_files'/*/fastqc_data.txt output.txt && cp '/data/share/it/staging/6081/outputs/dataset_43a35864-3982-4169-bd7e-da00571c345b_files'/*\.html output.html

Job Metrics

Metric Value
Container ID /cvmfs/singularity.galaxyproject.org/all/fastqc:0.12.1--hdfd78af_0
Container Type singularity

Inputs & Outputs

Type Name ID UUID
Input input_file 85cc1b5c464c1c81 232aecb6-e268-4f98-90c2-5cc9d28b2302
Output html_file d01693c7f142b37f 43a35864-3982-4169-bd7e-da00571c345b
Output text_file 2b46e462207c4e02 cb871173-787e-4514-9b5a-753ee41947ad

Failed Jobs

No failed jobs found.

Running Jobs

No running jobs found.

New Jobs

No new jobs found.

Queued Jobs

No queued jobs found.

Waiting Jobs

No waiting jobs found.

Compute ID: Default

Successful Jobs: 2 Failed Jobs: 0 Running Jobs: 0 New Jobs: 0 Queued Jobs: 0 Waiting Jobs: 0
Successful Jobs 2
Failed Jobs 0
Running Jobs 0
New Jobs 0
Queued Jobs 0
Waiting Jobs 0

Successful Jobs

Job ID: b900f786eba180a4 (Status: ok)

Tool: toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy1

Galaxy v24.2 Created: 2025-10-22 01:33:22.947230 Updated: 2025-10-22 01:34:05.425587

Job Information

History ID 61ed17066aa93144
Exit Code 0
Command Line
set -o | grep -q pipefail && set -o pipefail; ln -f -s '/data/share/datasets/2/3/2/dataset_232aecb6-e268-4f98-90c2-5cc9d28b2302.dat' input_f.fastq && THREADS=${GALAXY_SLOTS:-4} && if [ "$THREADS" -gt 1 ]; then (( THREADS-- )); fi && bowtie2 -p "$THREADS" -x '/cvmfs/data.galaxyproject.org/managed/bowtie2_index/sacCer3/sacCer3' -U 'input_f.fastq' | samtools sort -l 0 -T "${TMPDIR:-.}" -O bam | samtools view --no-PG -O bam -@ ${GALAXY_SLOTS:-1} -o '/data/share/jwd/006/6084/outputs/dataset_4408e78d-1bdc-47f7-ab9a-17ba3097af52.dat'

Job Metrics

Metric Value
hostname vgcnbwc-worker-ada-xxl-0000.novalocal
Cores Allocated 8
Memory Allocated (MB) 20480
Job Start Time 2025-10-22 01:28:34
Job End Time 2025-10-22 01:28:56
Job Runtime (Wall Clock) 22 seconds
CPU usage time 48.8405120 seconds
CPU user time 45.4937270 seconds
CPU system time 3.3467850 seconds
Number of processes belonging to this cgroup killed by any kind of OOM killer 0

Inputs & Outputs

Type Name ID UUID
Input library|input_1 85cc1b5c464c1c81 232aecb6-e268-4f98-90c2-5cc9d28b2302
Output output 3c59e4b947421278 4408e78d-1bdc-47f7-ab9a-17ba3097af52

Job ID: d5028efd25c876a5 (Status: ok)

Tool: toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.74+galaxy1

Galaxy v24.2 Created: 2025-10-22 01:33:22.848124 Updated: 2025-10-22 01:34:01.388421

Job Information

History ID 61ed17066aa93144
Exit Code 0
Command Line
ln -s '/data/share/datasets/2/3/2/dataset_232aecb6-e268-4f98-90c2-5cc9d28b2302.dat' '1_reads' && mkdir -p '/data/share/jwd/006/6083/outputs/dataset_a67c215d-4682-4753-accd-a5e3fb640f58_files' && fastqc --outdir '/data/share/jwd/006/6083/outputs/dataset_a67c215d-4682-4753-accd-a5e3fb640f58_files' --threads ${GALAXY_SLOTS:-2} --dir ${TEMP:-$_GALAXY_JOB_TMP_DIR} --quiet --extract --kmers 7 -f 'fastq' '1_reads' && cp '/data/share/jwd/006/6083/outputs/dataset_a67c215d-4682-4753-accd-a5e3fb640f58_files'/*/fastqc_data.txt output.txt && cp '/data/share/jwd/006/6083/outputs/dataset_a67c215d-4682-4753-accd-a5e3fb640f58_files'/*\.html output.html

Job Metrics

Metric Value
hostname vgcnbwc-worker-ada-xxl-0001.novalocal
Cores Allocated 3
Memory Allocated (MB) 5734
Job Start Time 2025-10-22 01:28:36
Job End Time 2025-10-22 01:28:54
Job Runtime (Wall Clock) 18 seconds
CPU usage time 15.8353100 seconds
CPU user time 14.0679450 seconds
CPU system time 1.7673640 seconds
Number of processes belonging to this cgroup killed by any kind of OOM killer 0

Inputs & Outputs

Type Name ID UUID
Input input_file 85cc1b5c464c1c81 232aecb6-e268-4f98-90c2-5cc9d28b2302
Output html_file 788a64a833004936 a67c215d-4682-4753-accd-a5e3fb640f58
Output text_file 54e9b0b3b32239f7 e9920b7c-fae0-4200-9d3a-583f4b45b895

Failed Jobs

No failed jobs found.

Running Jobs

No running jobs found.

New Jobs

No new jobs found.

Queued Jobs

No queued jobs found.

Waiting Jobs

No waiting jobs found.