add rule to rename report-main.html in report.html

SCRIPTS/common.smk

@@ -8,7 +8,17 @@ rule copyConfig:
 		cp {input} {output}
 		"""
 
-rule buildReport:
+rule renameMainReport:
+	input:
+		report = MAINDIR+"/{project}/report-" + DEFAULT_REPORT_PART + ".html"
+	output:
+		report = MAINDIR+"/{project}/report.html"
+	shell:
+		"""
+		mv {input.report} {output.report}
+		"""
+
+rule buildReportPart:
 	input:
 		unpack(getAllFilesForReport)
 	output:

Snakefile

@@ -106,9 +106,9 @@ def getTargetFiles():
 				for comps in config["comparisons"][p]["comps"]:
 					multiparts.add(comps.get("multipart", DEFAULT_REPORT_PART))
 		if multiparts:
-			targets.extend([os.path.join(MAINDIR,p,"report-{}.html".format(mp)) for mp in multiparts])
+			targets.extend([os.path.join(MAINDIR, p, "report-{}.html".format(mp)) if mp != DEFAULT_REPORT_PART else os.path.join(MAINDIR, p, "report.html") for mp in multiparts])
 		else:
-			targets.append(os.path.join(MAINDIR,p,"report-{}.html".format(DEFAULT_REPORT_PART)))
+			targets.append(os.path.join(MAINDIR, p, "report.html"))
 
 		targets.append(os.path.join(MAINDIR,p,"INPUT_FILES","samplesheet_used.tsv"))
 

multiplates.smk

@@ -78,9 +78,9 @@ def getTargetFiles():
 		for comps in config["comparisons"][config["analysis_name"]]["comps"]:
 			multiparts.add(comps.get("multipart", DEFAULT_REPORT_PART))
 	if multiparts:
-		targets.extend([os.path.join(MAINDIR,config["analysis_name"],"report-{}.html".format(mp)) for mp in multiparts])
+		targets.extend([os.path.join(MAINDIR, config["analysis_name"], "report-{}.html".format(mp)) if mp != DEFAULT_REPORT_PART else os.path.join(MAINDIR, config["analysis_name"], "report.html") for mp in multiparts])
 	else:
-		targets.append(os.path.join(MAINDIR,config["analysis_name"],"report-{}.html".format(DEFAULT_REPORT_PART)))
+		targets.append(os.path.join(MAINDIR, config["analysis_name"], "report.html".format(DEFAULT_REPORT_PART)))
 
 	return targets