chore(dreg): Remove DREG

In favor of identification methods with requirements more users will be able to meet: #39 Support for web portal submission eventually: #31
nf-core · Apr 1, 2022 · 7d6e5b0 · 7d6e5b0
1 parent 2c508dd
commit 7d6e5b0
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diff --git a/modules/local/dreg/main.nf b/modules/local/dreg/main.nf
diff --git a/workflows/nascent.nf b/workflows/nascent.nf
@@ -55,7 +55,6 @@ include { GROHMM                } from '../subworkflows/local/grohmm'
 
 include { FASTQC                                                  } from '../modules/nf-core/modules/fastqc/main'
 include { CAT_FASTQ                                               } from '../modules/nf-core/modules/cat/fastq/main'
-include { DREG_PEAKCALLING                                        } from '../modules/local/dreg/main'
 include { BED2SAF                                                 } from '../modules/local/bed2saf'
 include {
     SUBREAD_FEATURECOUNTS as SUBREAD_FEATURECOUNTS_GENE
@@ -211,18 +210,6 @@ workflow NASCENT {
 
         ch_identification_bed = GROHMM.out.bed
 
-    } else if (params.transcript_identification == 'dreg') {
-        // FIXME
-        println "Docker image is broken"
-
-        ch_dreg_model = file("ftp://cbsuftp.tc.cornell.edu/danko/hub/dreg.models/asvm.gdm.6.6M.20170828.rdata")
-
-        DREG_PEAKCALLING (
-            COVERAGE_GRAPHS.out.plus_minus,
-            ch_dreg_model
-        )
-
-        ch_identification_bed = GROHMM.out.bed
     } else if (params.transcript_identification == 'homer') {
         /*
         * SUBWORKFLOW: Transcript indetification with homer