--- a/macros.xml	Mon Sep 02 14:22:54 2024 +0000
+++ b/macros.xml	Sat Jan 25 17:24:12 2025 +0000
@@ -1,5 +1,5 @@
 <macros>
-    <token name="@TOOL_VERSION@">1.24.1</token>
+    <token name="@TOOL_VERSION@">1.27</token>
     <token name="@VERSION_SUFFIX@">0</token>
     <xml name="bio_tools">
         <xrefs>
@@ -180,7 +180,7 @@
                     <has_text text="result_right"/>
                     <has_text text="bwa-mem-fastq1_fq"/>
                     <has_text text="25839_merged"/>
-                    <has_text text="Slamdunk_mqc_generalstats_slamdunk_retained"/>
+                    <has_text text="slamdunk-retained"/>
                     <has_text text="C2"/>
                     <has_n_lines n="11"/>
                     <has_n_columns n="22"/>
@@ -275,7 +275,7 @@
                     <has_text text="hisat2_2_txt"/>
                     <has_text text="HS002-PE-R00059_BD0U5YACXX.RHM067_CAGATC_L002_R1"/>
                     <has_text text="treat2"/>
-                    <has_text text="Cutadapt"/>
+                    <has_text text="cutadapt-percent_trimmed"/>
                     <has_text text="star_log_txt"/>
                     <has_text text="tophat_txtalign"/>
                     <has_n_lines n="17"/>
@@ -488,7 +488,7 @@
                 <assert_contents>
                     <has_text text="bamtools_txt"/>
                     <has_text text="Test1"/>
-                    <has_text text="Prokka_mqc_generalstats_prokka_contigs"/>
+                    <has_text text="prokka-contigs"/>
                     <has_text text="5: TopHat on data 1, data 14, and data 13"/>
                     <has_text text="gatk_varianteval_txt"/>
                     <has_text text="x_bam"/>
@@ -500,12 +500,13 @@
                     <has_text text="14892_1#15"/>
                     <has_text text="samtools_flagstat_txt"/>
                     <has_text text="mapped_passed"/>
-                    <has_text text="stats_mqc_generalstats_samtools_stats_error_rate"/>
+                    <has_text text="samtools_stats-error_rate"/>
                     <has_text text="samtools_stats_txt"/>
                     <has_text text="snpeff_csv"/>
-                    <has_text text="Bamtools"/>
+                    <has_text text="bamtools-mapped_reads_pct"/>
+                    <has_text text="bamtools-duplicates_pct"/>
                     <has_n_lines n="22"/>
-                    <has_n_columns n="46"/>
+                    <has_n_columns n="50"/>
                 </assert_contents>
             </output>
         </test>
@@ -525,7 +526,7 @@
             </repeat>
             <output name="html_report" ftype="html">
                 <assert_contents>
-                    <has_size value="4594258" delta="500"/>
+                    <has_size value="4766687" delta="500"/>
                 </assert_contents>
             </output>
             <!--output name="stats" ftype="tabular">
@@ -560,7 +561,7 @@
             <output name="stats" ftype="tabular">
                 <assert_contents>
                     <has_text text="poulet5_2"/>
-                    <has_text text="FastQC"/>
+                    <has_text text="fastqc-percent_gc"/>
                     <has_n_lines n="3"/>
                     <has_n_columns n="7"/>
                 </assert_contents>
@@ -596,7 +597,7 @@
             </output>
             <output name="stats" ftype="tabular">
                 <assert_contents>
-                    <has_text text="pycoQC_mqc_generalstats_pycoqc_passed_median_read_length"/>
+                    <has_text text="pycoqc-passed_median_read_length"/>
                     <has_text text="pycoqc_json"/>
                 </assert_contents>
             </output>