Use v2 image tag to force fresh pull with boto3 baked in
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5
main.nf
5
main.nf
@@ -9,7 +9,7 @@ params.model_path = '/workspace/gvp/models/pocketminer'
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params.debug = false
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process POCKETMINER {
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container 'harbor.cluster.omic.ai/omic/pocketminer:latest'
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container 'harbor.cluster.omic.ai/omic/pocketminer:v2'
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publishDir params.outdir, mode: 'copy'
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input:
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@@ -66,9 +66,6 @@ process POCKETMINER {
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echo "AWS_SECRET_ACCESS_KEY: \${AWS_SECRET_ACCESS_KEY:+set}" >> run.log
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echo "AWS_ENDPOINT_URL: \${AWS_ENDPOINT_URL:-not set}" >> run.log
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# Install boto3 if needed, then download
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pip install -q boto3 2>> run.log || conda install -y -q boto3 2>> run.log || true
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python -c "
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import os, sys
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s3_path = os.environ.get('S3_INPUT', '${pdb_path}')
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