osx arm64/v8 failure on profile test,docker

[PikalaxALT]

Description of the bug

STAR command fails to produce output in linux/amd64 mode on macOS arm64/v8 in docker profile

Command used and terminal output

% nextflow run nf-core/rnaseq -profile rnaseq,docker -process.containerOptions "--platform linux/amd64"

...

Execution cancelled -- Finishing pending tasks before exit
-[nf-core/rnaseq] Pipeline completed with errors-
ERROR ~ Error executing process > 'NFCORE_RNASEQ:RNASEQ:ALIGN_STAR:STAR_ALIGN (RAP1_IAA_30M_REP1)'

Caused by:
Missing output file(s) *Log.final.out expected by process NFCORE_RNASEQ:RNASEQ:ALIGN_STAR:STAR_ALIGN (RAP1_IAA_30M_REP1)

Command executed:

STAR
--genomeDir star
--readFilesIn input1/RAP1_IAA_30M_REP1_primary_1.fastq.gz input2/RAP1_IAA_30M_REP1_primary_2.fastq.gz
--runThreadN 4
--outFileNamePrefix RAP1_IAA_30M_REP1.

--sjdbGTFfile genome_gfp.gtf
--outSAMattrRGline 'ID:RAP1_IAA_30M_REP1' 'SM:RAP1_IAA_30M_REP1'
--quantMode TranscriptomeSAM --twopassMode Basic --outSAMtype BAM Unsorted --readFilesCommand zcat --runRNGseed 0 --outFilterMultimapNmax 20 --alignSJDBoverhangMin 1 --outSAMattributes NH HI AS NM MD --outSAMstrandField intronMotif --quantTranscriptomeSAMoutput BanSingleEnd

if [ -f RAP1_IAA_30M_REP1.Unmapped.out.mate1 ]; then
mv RAP1_IAA_30M_REP1.Unmapped.out.mate1 RAP1_IAA_30M_REP1.unmapped_1.fastq
gzip RAP1_IAA_30M_REP1.unmapped_1.fastq
fi
if [ -f RAP1_IAA_30M_REP1.Unmapped.out.mate2 ]; then
mv RAP1_IAA_30M_REP1.Unmapped.out.mate2 RAP1_IAA_30M_REP1.unmapped_2.fastq
gzip RAP1_IAA_30M_REP1.unmapped_2.fastq
fi

cat <<-END_VERSIONS > versions.yml
"NFCORE_RNASEQ:RNASEQ:ALIGN_STAR:STAR_ALIGN":
star: $(STAR --version | sed -e "s/STAR_//g")
samtools: $(echo $(samtools --version 2>&1) | sed 's/^.samtools //; s/Using.$//')
gawk: $(echo $(gawk --version 2>&1) | sed 's/^.GNU Awk //; s/, .$//')
END_VERSIONS

Command exit status:
0

Command output:
(empty)

Work dir:
/Users/pikalaxalt/nextflow-launch-directories/work/d2/c757228cbe86dafe7412bc3d1afd2d

Container:
quay.io/nf-core/star_samtools_htslib_gawk:10c6e8c834460019

Tip: when you have fixed the problem you can continue the execution adding the option -resume to the run command line

-- Check '.nextflow.log' file for details
ERROR ~ Pipeline failed. Please refer to troubleshooting docs: https://nf-co.re/docs/usage/troubleshooting

-- Check '.nextflow.log' file for details

Relevant files

Version: 24.10.0 build 5928
Created: 27-10-2024 18:36 UTC (14:36 EDT)
System: Mac OS X 15.1
Runtime: Groovy 4.0.23 on OpenJDK 64-Bit Server VM 11.0.13+7-b1751.21
Encoding: UTF-8 (UTF-8)

Core Nextflow options
revision : master
runName : serene_bhabha
containerEngine : docker
launchDir : /Users/pikalaxalt/nextflow-launch-directories
workDir : /Users/pikalaxalt/nextflow-launch-directories/work
projectDir : /Users/pikalaxalt/.nextflow/assets/nf-core/rnaseq
userName : pikalaxalt
profile : docker,test
configFiles :

nextflow version: 24.10.0
hardware: macbook
executor: local
container engine: docker
os: macos 15.1 silicon (arm64 v8)
version of nf-core/rnaseq: 00f924c

System information

No response