bugfixes

AggressiveHayBale · Jan 31, 2023 · 3ce82c6 · 3ce82c6
1 parent 0b6ce07
commit 3ce82c6
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Showing 2 changed files with 7 additions and 4 deletions.
diff --git a/bin/R_comparison.R b/bin/R_comparison.R
@@ -90,7 +90,7 @@ prokka<- annotation_merged
 annotation <- suppressMessages(read_delim(bakta_gbff,
                                           delim = "\t", escape_double = FALSE,
                                           col_names = FALSE, comment = c("#"), trim_ws = TRUE))
-fasta_data <- read_faa(prokka_faa)
+fasta_data <- read_faa(bakta_faa)
 
 
 #Cleanup

diff --git a/workflows/analysis_wf.nf b/workflows/analysis_wf.nf
@@ -59,9 +59,12 @@ workflow analysis_wf{
     report_original=analysis_org(original_proc,'original')
     report_noise=analysis_noise(noise,'noise')
     report_split=analysis_split(split,'split')
-
-    report_original.mix(report_noise).mix(report_split).collectFile(name: 'collected_reports.csv', keepHeader: true ,storeDir: '${params.output}/final_report/')
-
+
+    report_original.collectFile(name: 'collected_original_fasta_report.csv', keepHeader: true ,storeDir: "${params.output}/final_report/")
+    report_noise.collectFile(name: 'collected_noise_fasta_report.csv', keepHeader: true ,storeDir: "${params.output}/final_report/")
+    report_split.collectFile(name: 'collected_split_fasta_report.csv', keepHeader: true ,storeDir: "${params.output}/final_report/")
+
+
     emit: 
     combined