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@@ -165,9 +165,7 @@ |
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config-path (fs-lib/join-paths dest-dir "results", "quartet_rnaseq_report.yaml")] |
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(try |
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(fs-lib/create-directories! result-dir) |
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(log/info "Merge these files") |
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(log/info "Merge gene experiment files from ballgown directory to a experiment table: " ballgown-dir exp-fpkm-filepath) |
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(log/info "Merge these files") |
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(log/info "Merge gene experiment files from count directory to a experiment table: " count-dir exp-count-filepath) |
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(filter-mkdir-copy datadir [".*call-ballgown/.*.txt"] dest-dir "ballgown") |
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(filter-mkdir-copy datadir [".*call-count/.*gene_count_matrix.csv"] dest-dir "count") |
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@@ -203,9 +201,9 @@ |
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(fn [] |
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(update-process! task-id 80) |
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(mq/multiqc result-dir dest-dir {:config config-path |
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:template "default" |
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:template "quartet_rnaseq_report" |
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:title "Quartet RNA report" |
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:env {:PATH (add-env-to-path "quartet-metqc-report")}}))] |
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:env {:PATH (add-env-to-path "quartet-rnaseq-report")}}))] |
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(fn [result] (= (:status result) "Success"))) |
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status (:status (last results)) |
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msg (apply str (map :msg results)) |