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The tower param specification in nextflow.config seems to be incompatible with Nextflow version 24.04.2.
It works in 24.04.3 and 24.04.4.
Place an ❌ in a Box that Best Matches the Bug's Importance:
Please Complete the Following Information:
nextflow run main.nf -profile test,singularity --species virus --submission --sra --biosample --output_dir test --submission_config ~/02.scratch/submission_config.yaml
Nextflow 24.10.0 is available - Please consider updating your version to it
N E X T F L O W ~ version 24.04.2
Launching main.nf [marvelous_waddington] DSL2 - revision: 92b49e04b8
main.nf
[- ] process > TOSTADAS_WORKFLOW:TOSTADAS:VALIDATE_PARAMS - [- ] process > TOSTADAS_WORKFLOW:TOSTADAS:METADATA_VALIDATION - [- ] process > TOSTADAS_WORKFLOW:TOSTADAS:REPEATMASKER_LIFTOFF:REPEATMASKER - [- ] process > TOSTADAS_WORKFLOW:TOSTADAS:REPEATMASKER_LIFTOFF:LIFTOFF_CLI - [- ] process > TOSTADAS_WORKFLOW:TOSTADAS:REPEATMASKER_LIFTOFF:CONCAT_GFFS - [- ] process > TOSTADAS_WORKFLOW:TOSTADAS:GET_WAIT_TIME - [- ] process > TOSTADAS_WORKFLOW:TOSTADAS:INITIAL_SUBMISSION:SUBMISSION - [- ] process > TOSTADAS_WORKFLOW:TOSTADAS:INITIAL_SUBMISSION:WAIT - [- ] process > TOSTADAS_WORKFLOW:TOSTADAS:INITIAL_SUBMISSION:UPDATE_SUBMISSION - ERROR ~ Error executing process > 'TOSTADAS_WORKFLOW:TOSTADAS:VALIDATE_PARAMS'
Caused by: For input string: ""
-- Check '.nextflow.log' file for details
The text was updated successfully, but these errors were encountered:
Removed the tower config params
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jessicarowell
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The tower param specification in nextflow.config seems to be incompatible with Nextflow version 24.04.2.
It works in 24.04.3 and 24.04.4.
Place an ❌ in a Box that Best Matches the Bug's Importance:
Please Complete the Following Information:
nextflow run main.nf -profile test,singularity --species virus --submission --sra --biosample --output_dir test --submission_config ~/02.scratch/submission_config.yaml
Nextflow 24.10.0 is available - Please consider updating your version to it
N E X T F L O W ~ version 24.04.2
Launching
main.nf
[marvelous_waddington] DSL2 - revision: 92b49e04b8[- ] process > TOSTADAS_WORKFLOW:TOSTADAS:VALIDATE_PARAMS -
[- ] process > TOSTADAS_WORKFLOW:TOSTADAS:METADATA_VALIDATION -
[- ] process > TOSTADAS_WORKFLOW:TOSTADAS:REPEATMASKER_LIFTOFF:REPEATMASKER -
[- ] process > TOSTADAS_WORKFLOW:TOSTADAS:REPEATMASKER_LIFTOFF:LIFTOFF_CLI -
[- ] process > TOSTADAS_WORKFLOW:TOSTADAS:REPEATMASKER_LIFTOFF:CONCAT_GFFS -
[- ] process > TOSTADAS_WORKFLOW:TOSTADAS:GET_WAIT_TIME -
[- ] process > TOSTADAS_WORKFLOW:TOSTADAS:INITIAL_SUBMISSION:SUBMISSION -
[- ] process > TOSTADAS_WORKFLOW:TOSTADAS:INITIAL_SUBMISSION:WAIT -
[- ] process > TOSTADAS_WORKFLOW:TOSTADAS:INITIAL_SUBMISSION:UPDATE_SUBMISSION -
ERROR ~ Error executing process > 'TOSTADAS_WORKFLOW:TOSTADAS:VALIDATE_PARAMS'
Caused by:
For input string: ""
-- Check '.nextflow.log' file for details
The text was updated successfully, but these errors were encountered: