A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

:x: *createpanelrefs/createpanelrefs/test_full* failed :crying_cat_face: *Run Name*
big_booth_5 *Duration*
21h 55m 46s *Status*
:x: Failed *Error Message*
```(more omitted..)
Running:
    java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx4915M -XX:-UsePerfData -jar /opt/conda/share/gatk4-4.6.2.0-0/gatk-package-4.6.2.0-local.jar GenomicsDBImport --variant HCC1395N.vcf.gz --variant NA12878.vcf.gz --genomicsdb-workspace-path null --intervals genome.bed --tmp-dir .
06:02:35.686 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/opt/conda/share/gatk4-4.6.2.0-0/gatk-package-4.6.2.0-local.jar!/com/intel/gkl/native/libgkl_compression.so
06:02:35.825 INFO  GenomicsDBImport - ------------------------------------------------------------
06:02:35.827 INFO  GenomicsDBImport - The Genome Analysis Toolkit (GATK) v4.6.2.0
06:02:35.827 INFO  GenomicsDBImport - For support and documentation go to <https://software.broadinstitute.org/gatk/>
06:02:35.827 INFO  GenomicsDBImport - Executing as root@ip-172-31-21-134.eu-west-1.compute.internal on Linux v6.1.166-197.305.amzn2023.x86_64 amd64
06:02:35.827 INFO  GenomicsDBImport - Java runtime: OpenJDK 64-Bit Server VM v17.0.11-internal+0-adhoc..src
06:02:35.827 INFO  GenomicsDBImport - Start Date/Time: April 22, 2026 at 6:02:35 AM GMT
06:02:35.828 INFO  GenomicsDBImport - ------------------------------------------------------------
06:02:35.828 INFO  GenomicsDBImport - ------------------------------------------------------------
06:02:35.828 INFO  GenomicsDBImport - HTSJDK Version: 4.2.0
06:02:35.828 INFO  GenomicsDBImport - Picard Version: 3.4.0
06:02:35.828 INFO  GenomicsDBImport - Built for Spark Version: 3.5.0
06:02:35.830 INFO  GenomicsDBImport - HTSJDK Defaults.COMPRESSION_LEVEL : 2
06:02:35.830 INFO  GenomicsDBImport - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
06:02:35.830 INFO  GenomicsDBImport - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
06:02:35.830 INFO  GenomicsDBImport - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
06...``` *Command Line*
```nextflow run '<https://github.com/nf-core/createpanelrefs>' -name big_booth_5 -params-file '<https://api.cloud.seqera.io/ephemeral/oqFFR8l_QIWW8GLEg6yLhw.json>' -with-tower -r dev -profile test_full -resume eb25704c-0764-40b9-b2e1-076448793b8e -latest``` Apr 22, 2026 at 6:02 AM :link: View in Seqera Platform button