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Commit 041721c1 authored by JasperBoom's avatar JasperBoom
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Remove metrics file.

parent e0692dcb
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......@@ -11,6 +11,8 @@ that users understand how the changes affect the new version.
version 5.0.0-dev
---------------------------
+ Centrifuge: Remove metrics file from classification (which causes the
summary report to be empty). https://github.com/DaehwanKimLab/centrifuge/issues/83
+ Add NanoPlot and NanoQC tasks.
+ Centrifuge: Add `timeMinutes` to `Classify` task and remove unnecessary
downloading tasks (alternative is refseqtools).
......
......@@ -128,7 +128,6 @@ task Classify {
~{inputFormatOptions[inputFormat]} \
~{true="--phred64" false="--phred33" phred64} \
--min-hitlen ~{minHitLength} \
~{"--met-file " + outputPrefix + "_alignment_metrics.tsv"} \
--threads ~{threads} \
~{"--trim5 " + trim5} \
~{"--trim3 " + trim3} \
......@@ -143,7 +142,6 @@ task Classify {
>>>
output {
File metrics = outputPrefix + "_alignment_metrics.tsv"
File classification = outputPrefix + "_classification.tsv"
File report = outputPrefix + "_output_report.tsv"
}
......@@ -175,7 +173,6 @@ task Classify {
dockerImage: {description: "The docker image used for this task. Changing this may result in errors which the developers may choose not to address.", category: "advanced"}
# outputs
metrics: {description: "File with centrifuge metrics."}
classification: {description: "File with the classification results."}
report: {description: "File with a classification summary."}
}
......
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