RNA-seq analysis workflow (Salmon, RS1) · run 2026-10-20 11:37–11:39 CEST Workflow Run uri icon

start time

  • October 20, 2026 11:37 AM

end time

  • October 20, 2026 11:39 AM

duration (s)

  • 175

duration time calculation method

  • Slurm ElapsedRaw of the job (start to end). Display timestamps use Europe/Berlin.

run status

  • Succeeded

CPU efficiency (%)

  • 32.3

data read (GB)

  • 13.43724978176

data written (GB)

  • 8.87794696192

CPU time (s)

  • 14469.0

CPU time calculation method

  • Slurm TotalCPU of the job (user + system CPU time of all steps); 256 CPUs allocated of 256 node CPUs.

task count

  • 5

peak memory (GB)

  • 9.55262976

GPU usage status

  • GPU requested in Slurm allocation

memory calculation method

  • Peak memory: the largest resident memory (Slurm MaxRSS) of any job step, converted from bytes to gigabytes. No average memory: Slurm does not record memory use over time.

energy consumed (kWh)

  • 0.024415793864971783

energy measurement coverage

  • 100% of the node (whole node, measured)

node power average (W)

  • 502.3

node power maximum (W)

  • 629.0

node awake idle power (W)

  • 403.5

carbon emission (kg CO2e)

  • 0.00766655927360114

carbon intensity (kg CO2e/kWh)

  • 0.314

energy metric source

  • IPMI power of the compute node read through its Prometheus ipmi_exporter; Slurm acct_gather_energy/ipmi for comparison

energy calculation method

  • Node energy: IPMI power of the node (ipmi_exporter) read about every 10 s while the job ran (19 readings, 413 to 629 W, covering 98% of the job), integrated over time and scaled to the job duration (175 s): 87897 J. The whole node was allocated to this job, so all of it is the job's energy, converted to kilowatt-hours (1 kWh = 3,600,000 J): 0.024416 kWh. Slurm accounting (acct_gather_energy/ipmi) reports 382107 J; it is not used, because it would mean an average power of 2183 W, outside the node's IPMI readings during the job (413 to 629 W). Single node hpc-cms01-003 (HPC@HU), allocated entirely to this job (all 256 CPUs). Energy is the measured energy of the whole node, including its idle power; cooling and network are excluded.

carbon calculation method

  • Time-matched: the run's energy 0.024416 kWh x the 15-minute carbon intensity of the grid (Electricity Maps, zone DE, lifecycle, flow-traced) in the quarter-hours the run used, weighted by the run's energy in each quarter-hour (split by power readings; 2026-10-20 09:30 UTC 314 g/kWh x 100.0%) = 314.0 g/kWh, so 7.67 g CO2e. Window start and end are Europe/Berlin times. Recalculated on 2026-11-07: replaces the earlier value 6.98 g CO2e (286.0 g/kWh, Electricity Maps).

idle power method

  • The idle power of node hpc-cms01-003 is not known: the cluster monitoring (Prometheus) has no time in the 90 days up to 2026-10-30 when nothing had run on the node for at least 30 minutes, and it is not known whether its idle processor cores sleep. Awake idle power: 403.5 W, the average IPMI power with the whole node allocated to an empty job while its power was read once a second on the node (Slurm job 1645530, 2026-10-25, 302 readings). No energy above idle is given for this run, because the node's idle power is not known.

git commit

  • c071811dce8878de67148b0825f1e7fa5c96d982

job name

  • rs1-salmon (Slurm job 1640764, partition standard, exit code 0:0)

container image

  • docker.io/biocontainers/fastp@sha256:36c3841644a023f360c1e33ac2497dc91755d4ace5e2b1162e16304b8f5179d0;
  • docker.io/combinelab/salmon@sha256:13b09d8be8722b786fc954809cdc96e8fa6037e1eb8296120a29c936ab18860b;
  • docker.io/nfcore/rnaseq@sha256:683625354fdcdefaad1a2710e4ba0517ac5316e47dddd6148aa8d685282a857b;
  • docker.io/ninedem/check_strandedness@sha256:1a8e1b00f51f02ad4c7876975d735b9f4ee7c365f1d499eceb3a35fdea8dcdde;

trace types

  • Slurm accounting (sacct); node CPU and IPMI power samples; node hardware inventory; node IPMI temperature readings; Nextflow log; Nextflow task trace

trace data format

  • TSV and plain text

CPUs used

  • All 256 CPUs (hardware threads) of the node: 128 cores on 2 processors.

fan speed average (rpm)

  • 7863.0

node CPU utilisation average (%)

  • 33.0

node conditions method

  • Node CPU utilisation: CPU time of all processes on the node (node_exporter, all modes except idle and iowait) / (256 CPUs x sampled time) = 33.0% (84.6 of 256 CPUs busy on average). Node power: IPMI power of the node (ipmi_exporter), 19 readings about every 10 s: average 502 W (over time), lowest 413 W, highest 629 W. CPU efficiency: job CPU time 14469 s / (256 allocated CPUs x 175 s) = 32.3%. CPU frequency: current frequency of the 256 CPUs the job could use (/proc/cpuinfo), 19 readings. At each reading the fastest of these CPUs is taken, because the CPUs that are working run fastest: average 3234 MHz, highest 3694 MHz. Average over all of these CPUs, including idle ones: 2433 MHz. Fan speed: IPMI fan sensors of the node (ipmi_exporter), 6 fans, 19 readings: average 7863 rpm (mean of the fans, over time), highest 8280 rpm. Data read and written: Slurm accounting MaxDiskRead and MaxDiskWrite of the job's 1 step(s): 13.437 GB read, 8.878 GB written. This is all data the job's processes read and wrote, on any file system.

workflow engine

language

execution host

  • hpc-cms01-003

node allocatable CPU

  • 256

node allocatable memory (GB)

  • 1081.494499328

node architecture

  • x86_64; 2 x AMD EPYC 7713 64-Core Processor; 256 hardware threads

os image

  • openSUSE Leap 16.0

kernel version

  • 6.12.0-160000.36-default

backend