diff --git a/modules/nextclade/datasetget/main.nf b/modules/nextclade/datasetget/main.nf index 55371168..00dc8ff9 100644 --- a/modules/nextclade/datasetget/main.nf +++ b/modules/nextclade/datasetget/main.nf @@ -2,10 +2,10 @@ process NEXTCLADE_DATASETGET { tag "$dataset" label 'process_low' - conda (params.enable_conda ? "bioconda::nextclade=1.9.0" : null) + conda (params.enable_conda ? "bioconda::nextclade=1.10.1" : null) container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/nextclade:1.9.0--h9ee0642_0' : - 'quay.io/biocontainers/nextclade:1.9.0--h9ee0642_0' }" + 'https://depot.galaxyproject.org/singularity/nextclade:1.10.1--h9ee0642_0' : + 'quay.io/biocontainers/nextclade:1.10.1--h9ee0642_0' }" input: val dataset diff --git a/modules/nextclade/run/main.nf b/modules/nextclade/run/main.nf index e29dd8ce..36e19aab 100644 --- a/modules/nextclade/run/main.nf +++ b/modules/nextclade/run/main.nf @@ -2,10 +2,10 @@ process NEXTCLADE_RUN { tag "$meta.id" label 'process_low' - conda (params.enable_conda ? "bioconda::nextclade=1.9.0" : null) + conda (params.enable_conda ? "bioconda::nextclade=1.10.1" : null) container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/nextclade:1.9.0--h9ee0642_0' : - 'quay.io/biocontainers/nextclade:1.9.0--h9ee0642_0' }" + 'https://depot.galaxyproject.org/singularity/nextclade:1.10.1--h9ee0642_0' : + 'quay.io/biocontainers/nextclade:1.10.1--h9ee0642_0' }" input: tuple val(meta), path(fasta) diff --git a/tests/modules/nextclade/datasetget/main.nf b/tests/modules/nextclade/datasetget/main.nf index 0fc38a5b..8f4fa87b 100644 --- a/tests/modules/nextclade/datasetget/main.nf +++ b/tests/modules/nextclade/datasetget/main.nf @@ -8,7 +8,8 @@ workflow test_nextclade_datasetget { dataset = 'sars-cov-2' reference = 'MN908947' - tag = '2022-01-05T19:54:31Z' + tag = '2022-01-18T12:00:00Z' NEXTCLADE_DATASETGET ( dataset, reference, tag ) + } diff --git a/tests/modules/nextclade/datasetget/test.yml b/tests/modules/nextclade/datasetget/test.yml index 7e798a11..d610b428 100644 --- a/tests/modules/nextclade/datasetget/test.yml +++ b/tests/modules/nextclade/datasetget/test.yml @@ -9,12 +9,14 @@ - path: output/nextclade/sars-cov-2/primers.csv md5sum: 5990c3483bf66ce607aeb90a44e7ef2e - path: output/nextclade/sars-cov-2/qc.json - md5sum: 018fa0c0b0d2e824954e37e01495d549 + md5sum: c512f51fda0212b21ffff05779180963 - path: output/nextclade/sars-cov-2/reference.fasta md5sum: c7ce05f28e4ec0322c96f24e064ef55c - path: output/nextclade/sars-cov-2/sequences.fasta md5sum: 41129d255b99e0e92bdf20e866b99a1b - path: output/nextclade/sars-cov-2/tag.json - md5sum: 2f6d8e806d9064571ee4188ef1304c9c + md5sum: 402ac2b87e2a6a64a3fbf5ad16497af3 - path: output/nextclade/sars-cov-2/tree.json - md5sum: f8fb33ed62b59142ac20998eb599df6c \ No newline at end of file + md5sum: b8f32f547ff9e2131d6fc66b68fc54b1 + - path: output/nextclade/sars-cov-2/virus_properties.json + md5sum: 5f2de3949e07cb633f3d9e4a7654dc81 diff --git a/tests/modules/nextclade/run/main.nf b/tests/modules/nextclade/run/main.nf index 35b52317..ed674a0d 100644 --- a/tests/modules/nextclade/run/main.nf +++ b/tests/modules/nextclade/run/main.nf @@ -9,7 +9,7 @@ workflow test_nextclade_run { dataset = 'sars-cov-2' reference = 'MN908947' - tag = '2022-01-05T19:54:31Z' + tag = '2022-01-18T12:00:00Z' NEXTCLADE_DATASETGET ( dataset, reference, tag ) @@ -20,3 +20,4 @@ workflow test_nextclade_run { NEXTCLADE_RUN ( input, NEXTCLADE_DATASETGET.out.dataset ) } + diff --git a/tests/modules/nextclade/run/test.yml b/tests/modules/nextclade/run/test.yml index 37f7d8ae..ea846378 100644 --- a/tests/modules/nextclade/run/test.yml +++ b/tests/modules/nextclade/run/test.yml @@ -6,8 +6,8 @@ files: - path: output/nextclade/test.json - path: output/nextclade/test.csv - md5sum: 3b87a4da190ba2e1fdc8418dc3a7ffdb + md5sum: 570c1aa2d5fd25c23d0042c1b06108e1 - path: output/nextclade/test.tsv - md5sum: 449393288e8734a02def139c550a8d9b + md5sum: dd76e1a4c760785489be4e4a860b4d00 - path: output/nextclade/test.tree.json - md5sum: 9c6e33cb7ff860bee6194847bd2c855c + md5sum: 3591b4dc1542995a7ffcffcb1f52b524