9425049c9533a3349399b237409cec3152d17054
galt
  Wed Jul 21 19:39:26 2021 -0700
Adding pdf to ignore list in cirm cdwMakeEnrichments.

diff --git src/hg/cirm/cdw/cdwMakeEnrichments/cdwMakeEnrichments.c src/hg/cirm/cdw/cdwMakeEnrichments/cdwMakeEnrichments.c
index 298d1ae..3e4d11c 100644
--- src/hg/cirm/cdw/cdwMakeEnrichments/cdwMakeEnrichments.c
+++ src/hg/cirm/cdw/cdwMakeEnrichments/cdwMakeEnrichments.c
@@ -432,30 +432,31 @@
 return targetList;
 }
 
 char *ignoredFormats[] = {
 	"idat",
 	"customTrack",
 	"rcc",
 	"kallisto_abundance",
 	"expression_matrix",
 	"bam.bai",
 	"vcf.gz.tbi",
 	"text",
 	"html",
 	"csv",
 	"tsv",
+	"pdf",
 	"unknown",
 	};
 
 void doEnrichments(struct sqlConnection *conn, struct cdwFile *ef, char *path, 
     struct hash *assemblyToTarget)
 /* Calculate enrichments on for all targets file. The targetList and the
  * grtList are in the same order. */
 {
 /* Get validFile from database. */
 struct cdwValidFile *vf = cdwValidFileFromFileId(conn, ef->id);
 if (vf == NULL)
     return;	/* We can only work if have validFile table entry */
 
 if (!isEmpty(vf->enrichedIn) && !sameWord(vf->ucscDb, "unknown") && !isEmpty(vf->ucscDb)
     && !sameWord(vf->format, "unknown"))
@@ -496,31 +497,31 @@
 	else if (sameString(format, "bigWig"))
 	    doEnrichmentsFromBigWig(conn, ef, vf, assembly, targetList);
 	else if (startsWith("bed_", format))
 	    doEnrichmentsFromBed(conn, ef, vf, assembly, targetList);
 	else if (cdwIsSupportedBigBedFormat(format) || sameString(format, "bigBed"))
 	    doEnrichmentsFromBigBed(conn, ef, vf, assembly, targetList);
 	else if (sameString(format, "gtf"))
 	    doEnrichmentsFromSampleBed(conn, ef, vf, assembly, targetList);
 	else if (sameString(format, "gff"))
 	    doEnrichmentsFromSampleBed(conn, ef, vf, assembly, targetList);
 	else if (sameString(format, "bam"))
 	    doEnrichmentsFromSampleBed(conn, ef, vf, assembly, targetList);
 	else if (sameString(format, "vcf"))
 	    doEnrichmentsFromSampleBed(conn, ef, vf, assembly, targetList);
 	else if (stringIx(format, ignoredFormats) >= 0)
-	    verbose(2, "Ignoring %s %s in doEnrichments, that's ok", format, ef->cdwFileName);
+	    verbose(2, "Ignoring %s %s in doEnrichments, that's ok\n", format, ef->cdwFileName);
 	else
 	    errAbort("Unrecognized format %s in doEnrichments(%s)", format, path);
 	}
 
     /* Clean up and go home. */
     cdwAssemblyFree(&assembly);
     }
 cdwValidFileFree(&vf);
 }
 
 
 void cdwMakeEnrichments(int startFileId, int endFileId)
 /* cdwMakeEnrichments - Scan through database and make a makefile to calc. enrichments and store 
  * in database. */
 {