--- a/test-data/fastqc_data_hisat.txt	Sun Sep 12 11:20:27 2021 +0000
+++ b/test-data/fastqc_data_hisat.txt	Thu Jun 08 20:02:11 2023 +0000
@@ -1,10 +1,11 @@
-##FastQC	0.11.9
+##FastQC	0.12.1
 >>Basic Statistics	pass
 #Measure	Value
 Filename	hisat_output_1_bam
 File type	Conventional base calls
 Encoding	Sanger / Illumina 1.9
 Total Sequences	20
+Total Bases	1.4 kbp
 Sequences flagged as poor quality	0
 Sequence length	70
 %GC	43
@@ -342,106 +343,106 @@
 >>END_MODULE
 >>Sequence Duplication Levels	pass
 #Total Deduplicated Percentage	100.0
-#Duplication Level	Percentage of deduplicated	Percentage of total
-1	100.0	100.0
-2	0.0	0.0
-3	0.0	0.0
-4	0.0	0.0
-5	0.0	0.0
-6	0.0	0.0
-7	0.0	0.0
-8	0.0	0.0
-9	0.0	0.0
->10	0.0	0.0
->50	0.0	0.0
->100	0.0	0.0
->500	0.0	0.0
->1k	0.0	0.0
->5k	0.0	0.0
->10k+	0.0	0.0
+#Duplication Level	Percentage of total
+1	100.0
+2	0.0
+3	0.0
+4	0.0
+5	0.0
+6	0.0
+7	0.0
+8	0.0
+9	0.0
+>10	0.0
+>50	0.0
+>100	0.0
+>500	0.0
+>1k	0.0
+>5k	0.0
+>10k+	0.0
 >>END_MODULE
 >>Overrepresented sequences	fail
 #Sequence	Count	Percentage	Possible Source
-GCGGTATTGCTTCTGCTCTTGCTGGTGGCGCCATGTCTAAATTGTTTGGAGGCGGTCAAAAAGCCGCCTC	1	5.0	No Hit
-CCATACAAAACAGGGTCGCCAGCAATATCGGTATAAGTCAAAGCACCTTTAGCGTTAAGGTACTGAATCT	1	5.0	No Hit
-TAAGCATTTGTTTCAGGGTTATTTGAATATCTATAACAACTATTTTCAAGCGCCGAGGATGCGTGACCGT	1	5.0	No Hit
-CTCGCCAAATGACGACTTCTACCACATCTATTGACATTATGGGTCTGCAAGCTGCTTATGCTAATTTGCA	1	5.0	No Hit
-CTGGCACTTCTGCCGTTTCTGATAAGTTGCTTGATTTGGTTGGACTTGGTGGCAAGTCTGCCGCTGATAA	1	5.0	No Hit
-TCTGCGTTTGCTGATGAACTAAGTCAACCTCAGCACTAACCTTGCGAGTCATTTCATTGATTTGGTCATT	1	5.0	No Hit
-GCGTTAAGGTACTGAATCTCTTTAGTCGCAGTAGGCGGAAAACGAACAAGCGCAAGAGTAAACATAGTGC	1	5.0	No Hit
-CTGAATGGAATTAAGAAAACCACCAATACCAGCATTAACCTTCAAACTATCAAAATATAACGTTGACGAT	1	5.0	No Hit
-CTCAAATCCGGCGTCAACCATACCAGCATAGGAAGCATCAGCACCAGCACGCTCCCAAGCATTAATCTCA	1	5.0	No Hit
-CAAATTAGCATAAGCAGCTTGCAGACCCATAATGTCAATAGATGTGGTAGAAGTCGTCATTTGGCTAGAA	1	5.0	No Hit
-GTGAAATTTCTAGGAAGGATGTTTTCCGTTCTGGTGATTCGTCTAAGAAGTTTAAGATTGCTGAGGGTCA	1	5.0	No Hit
-TGTTTTCCGTAAATTCAGCGCCTTCCATGATGCGACAGGCCGTTTGAATGTTGACGGGATGAACATAATA	1	5.0	No Hit
-CCTTTCGCCATCAACTAACGATTCTGTCAAAAACTGACGCGTTGGATGAGGAGAAGTGGCTTAATATGCT	1	5.0	No Hit
-TGGCGCTCTCCGTCTTTCTCCATTTCGTCGTGGCCTTGCTATTGACTCTACTGTAGACATTTTTACTTTT	1	5.0	No Hit
-GCGACCATTCAAAGGATAAACATCATAGGCAGTCGGGAGGGTAGTCGGAACCGACGAAGACTCAAAGCGA	1	5.0	No Hit
-TTTCGGATATTTCTGATGAGTCGAAAAATTATCTTGATAAAGCAGTAATTACTACTGCTTGTTTACGAAT	1	5.0	No Hit
-TTCTGGTGATTTGCAAGAACGCGTACTTATTCGCCACCATGATTATGACCAGTGTTTCCAGTCCGTTCAG	1	5.0	No Hit
-CTCGCGATTCAATCATGACTTCGTGATAAAAGATTGAGTGTGAGGTTATAACGCCGAAGCGGTAAAAAAT	1	5.0	No Hit
-ACCATAAACGCAAGCCTCAACGCAGCGACGAGCACGAGAGCGGTCAGTAGCAATCCAAACTTTGTTACTC	1	5.0	No Hit
-TTAGGTGTGTGTAAAACAGGTGCCGAAGAAGCTGGATTAACAGAATTGAGAACCAGCTTATCAGAAAAAA	1	5.0	No Hit
+CCTTTCGCCATCAACTAACGATTCTGTCAAAAACTGACGCGTTGGATGAG	1	5.0	No Hit
+TGGCGCTCTCCGTCTTTCTCCATTTCGTCGTGGCCTTGCTATTGACTCTA	1	5.0	No Hit
+ACCATAAACGCAAGCCTCAACGCAGCGACGAGCACGAGAGCGGTCAGTAG	1	5.0	No Hit
+TGTTTTCCGTAAATTCAGCGCCTTCCATGATGCGACAGGCCGTTTGAATG	1	5.0	No Hit
+CTGGCACTTCTGCCGTTTCTGATAAGTTGCTTGATTTGGTTGGACTTGGT	1	5.0	No Hit
+TCTGCGTTTGCTGATGAACTAAGTCAACCTCAGCACTAACCTTGCGAGTC	1	5.0	No Hit
+CCATACAAAACAGGGTCGCCAGCAATATCGGTATAAGTCAAAGCACCTTT	1	5.0	No Hit
+TAAGCATTTGTTTCAGGGTTATTTGAATATCTATAACAACTATTTTCAAG	1	5.0	No Hit
+CAAATTAGCATAAGCAGCTTGCAGACCCATAATGTCAATAGATGTGGTAG	1	5.0	No Hit
+GCGTTAAGGTACTGAATCTCTTTAGTCGCAGTAGGCGGAAAACGAACAAG	1	5.0	No Hit
+CTGAATGGAATTAAGAAAACCACCAATACCAGCATTAACCTTCAAACTAT	1	5.0	No Hit
+GCGACCATTCAAAGGATAAACATCATAGGCAGTCGGGAGGGTAGTCGGAA	1	5.0	No Hit
+GTGAAATTTCTAGGAAGGATGTTTTCCGTTCTGGTGATTCGTCTAAGAAG	1	5.0	No Hit
+CTCAAATCCGGCGTCAACCATACCAGCATAGGAAGCATCAGCACCAGCAC	1	5.0	No Hit
+TTCTGGTGATTTGCAAGAACGCGTACTTATTCGCCACCATGATTATGACC	1	5.0	No Hit
+CTCGCGATTCAATCATGACTTCGTGATAAAAGATTGAGTGTGAGGTTATA	1	5.0	No Hit
+TTAGGTGTGTGTAAAACAGGTGCCGAAGAAGCTGGATTAACAGAATTGAG	1	5.0	No Hit
+GCGGTATTGCTTCTGCTCTTGCTGGTGGCGCCATGTCTAAATTGTTTGGA	1	5.0	No Hit
+TTTCGGATATTTCTGATGAGTCGAAAAATTATCTTGATAAAGCAGTAATT	1	5.0	No Hit
+CTCGCCAAATGACGACTTCTACCACATCTATTGACATTATGGGTCTGCAA	1	5.0	No Hit
 >>END_MODULE
 >>Adapter Content	pass
-#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	SOLID Small RNA Adapter
-1	0.0	0.0	0.0	0.0	0.0
-2	0.0	0.0	0.0	0.0	0.0
-3	0.0	0.0	0.0	0.0	0.0
-4	0.0	0.0	0.0	0.0	0.0
-5	0.0	0.0	0.0	0.0	0.0
-6	0.0	0.0	0.0	0.0	0.0
-7	0.0	0.0	0.0	0.0	0.0
-8	0.0	0.0	0.0	0.0	0.0
-9	0.0	0.0	0.0	0.0	0.0
-10	0.0	0.0	0.0	0.0	0.0
-11	0.0	0.0	0.0	0.0	0.0
-12	0.0	0.0	0.0	0.0	0.0
-13	0.0	0.0	0.0	0.0	0.0
-14	0.0	0.0	0.0	0.0	0.0
-15	0.0	0.0	0.0	0.0	0.0
-16	0.0	0.0	0.0	0.0	0.0
-17	0.0	0.0	0.0	0.0	0.0
-18	0.0	0.0	0.0	0.0	0.0
-19	0.0	0.0	0.0	0.0	0.0
-20	0.0	0.0	0.0	0.0	0.0
-21	0.0	0.0	0.0	0.0	0.0
-22	0.0	0.0	0.0	0.0	0.0
-23	0.0	0.0	0.0	0.0	0.0
-24	0.0	0.0	0.0	0.0	0.0
-25	0.0	0.0	0.0	0.0	0.0
-26	0.0	0.0	0.0	0.0	0.0
-27	0.0	0.0	0.0	0.0	0.0
-28	0.0	0.0	0.0	0.0	0.0
-29	0.0	0.0	0.0	0.0	0.0
-30	0.0	0.0	0.0	0.0	0.0
-31	0.0	0.0	0.0	0.0	0.0
-32	0.0	0.0	0.0	0.0	0.0
-33	0.0	0.0	0.0	0.0	0.0
-34	0.0	0.0	0.0	0.0	0.0
-35	0.0	0.0	0.0	0.0	0.0
-36	0.0	0.0	0.0	0.0	0.0
-37	0.0	0.0	0.0	0.0	0.0
-38	0.0	0.0	0.0	0.0	0.0
-39	0.0	0.0	0.0	0.0	0.0
-40	0.0	0.0	0.0	0.0	0.0
-41	0.0	0.0	0.0	0.0	0.0
-42	0.0	0.0	0.0	0.0	0.0
-43	0.0	0.0	0.0	0.0	0.0
-44	0.0	0.0	0.0	0.0	0.0
-45	0.0	0.0	0.0	0.0	0.0
-46	0.0	0.0	0.0	0.0	0.0
-47	0.0	0.0	0.0	0.0	0.0
-48	0.0	0.0	0.0	0.0	0.0
-49	0.0	0.0	0.0	0.0	0.0
-50	0.0	0.0	0.0	0.0	0.0
-51	0.0	0.0	0.0	0.0	0.0
-52	0.0	0.0	0.0	0.0	0.0
-53	0.0	0.0	0.0	0.0	0.0
-54	0.0	0.0	0.0	0.0	0.0
-55	0.0	0.0	0.0	0.0	0.0
-56	0.0	0.0	0.0	0.0	0.0
-57	0.0	0.0	0.0	0.0	0.0
-58	0.0	0.0	0.0	0.0	0.0
-59	0.0	0.0	0.0	0.0	0.0
+#Position	Illumina Universal Adapter	Illumina Small RNA 3' Adapter	Illumina Small RNA 5' Adapter	Nextera Transposase Sequence	PolyA	PolyG
+1	0.0	0.0	0.0	0.0	0.0	0.0
+2	0.0	0.0	0.0	0.0	0.0	0.0
+3	0.0	0.0	0.0	0.0	0.0	0.0
+4	0.0	0.0	0.0	0.0	0.0	0.0
+5	0.0	0.0	0.0	0.0	0.0	0.0
+6	0.0	0.0	0.0	0.0	0.0	0.0
+7	0.0	0.0	0.0	0.0	0.0	0.0
+8	0.0	0.0	0.0	0.0	0.0	0.0
+9	0.0	0.0	0.0	0.0	0.0	0.0
+10	0.0	0.0	0.0	0.0	0.0	0.0
+11	0.0	0.0	0.0	0.0	0.0	0.0
+12	0.0	0.0	0.0	0.0	0.0	0.0
+13	0.0	0.0	0.0	0.0	0.0	0.0
+14	0.0	0.0	0.0	0.0	0.0	0.0
+15	0.0	0.0	0.0	0.0	0.0	0.0
+16	0.0	0.0	0.0	0.0	0.0	0.0
+17	0.0	0.0	0.0	0.0	0.0	0.0
+18	0.0	0.0	0.0	0.0	0.0	0.0
+19	0.0	0.0	0.0	0.0	0.0	0.0
+20	0.0	0.0	0.0	0.0	0.0	0.0
+21	0.0	0.0	0.0	0.0	0.0	0.0
+22	0.0	0.0	0.0	0.0	0.0	0.0
+23	0.0	0.0	0.0	0.0	0.0	0.0
+24	0.0	0.0	0.0	0.0	0.0	0.0
+25	0.0	0.0	0.0	0.0	0.0	0.0
+26	0.0	0.0	0.0	0.0	0.0	0.0
+27	0.0	0.0	0.0	0.0	0.0	0.0
+28	0.0	0.0	0.0	0.0	0.0	0.0
+29	0.0	0.0	0.0	0.0	0.0	0.0
+30	0.0	0.0	0.0	0.0	0.0	0.0
+31	0.0	0.0	0.0	0.0	0.0	0.0
+32	0.0	0.0	0.0	0.0	0.0	0.0
+33	0.0	0.0	0.0	0.0	0.0	0.0
+34	0.0	0.0	0.0	0.0	0.0	0.0
+35	0.0	0.0	0.0	0.0	0.0	0.0
+36	0.0	0.0	0.0	0.0	0.0	0.0
+37	0.0	0.0	0.0	0.0	0.0	0.0
+38	0.0	0.0	0.0	0.0	0.0	0.0
+39	0.0	0.0	0.0	0.0	0.0	0.0
+40	0.0	0.0	0.0	0.0	0.0	0.0
+41	0.0	0.0	0.0	0.0	0.0	0.0
+42	0.0	0.0	0.0	0.0	0.0	0.0
+43	0.0	0.0	0.0	0.0	0.0	0.0
+44	0.0	0.0	0.0	0.0	0.0	0.0
+45	0.0	0.0	0.0	0.0	0.0	0.0
+46	0.0	0.0	0.0	0.0	0.0	0.0
+47	0.0	0.0	0.0	0.0	0.0	0.0
+48	0.0	0.0	0.0	0.0	0.0	0.0
+49	0.0	0.0	0.0	0.0	0.0	0.0
+50	0.0	0.0	0.0	0.0	0.0	0.0
+51	0.0	0.0	0.0	0.0	0.0	0.0
+52	0.0	0.0	0.0	0.0	0.0	0.0
+53	0.0	0.0	0.0	0.0	0.0	0.0
+54	0.0	0.0	0.0	0.0	0.0	0.0
+55	0.0	0.0	0.0	0.0	0.0	0.0
+56	0.0	0.0	0.0	0.0	0.0	0.0
+57	0.0	0.0	0.0	0.0	0.0	0.0
+58	0.0	0.0	0.0	0.0	0.0	0.0
+59	0.0	0.0	0.0	0.0	0.0	0.0
 >>END_MODULE