Update tests max and min length

galaxyproject · bgruening · Jun 2, 2021 · Jun 1, 2021 · Jun 1, 2021 · Jun 1, 2021
commit 838f0817c6de701b4c19ee76ff63619a1f9a729c
diff --git a/tools/cutadapt/cutadapt.xml b/tools/cutadapt/cutadapt.xml
@@ -642,21 +642,13 @@ $read_mod_options.zero_cap
             <section name="filter_options">
                 <param name="minimun_length" value="30"/>
                 <param name="pair_filter" value="both"/>
-                <conditional name="minimum_option">
+                <conditional name="minimum_options">
                     <param name="minimum_r2" value="true"/>
                     <param name="value_minimum" value="10"/>
                 </conditional>
             </section>
-            <output name="out1" ftype="fastq.gz">
-                <assert_contents>
-                    <has_size value="12180"/>
-                </assert_contents>
-            </output>
-            <output name="out2" ftype="fastq.gz">
-                <assert_contents>
-                    <has_size value="12153"/>
-                </assert_contents>
-            </output>
+            <output name="out1" decompress="True" file="cutadapt_out1_min_length.fq.gz" ftype="fastq.gz"/>
+            <output name="out2" decompress="True" file="cutadapt_out2_min_length.fq.gz" ftype="fastq.gz"/>
             <assert_command>
                 <has_text text="--minimum-length=30:10"/>
                 <has_text text="--pair-filter=both"/>
@@ -674,21 +666,13 @@ $read_mod_options.zero_cap
             <section name="filter_options">
                 <param name="pair_filter" value="both"/>
                 <param name="maximum_length" value="50"/>
-                <conditional name="maximum_option">
+                <conditional name="maximum_options">
                     <param name="maximum_r2" value="true"/>
                     <param name="value_maximum" value="30"/>
                 </conditional>
             </section>
-            <output name="out1" ftype="fastq.gz">
-                <assert_contents>
-                    <has_size value="134"/>
-                </assert_contents>
-            </output>
-            <output name="out2" ftype="fastq.gz">
-                <assert_contents>
-                    <has_size value="139"/>
-                </assert_contents>
-            </output>
+            <output name="out1" decompress="True" file="cutadapt_out1_max_length.fq.gz" ftype="fastq.gz"/>
+            <output name="out2" decompress="True" file="cutadapt_out2_max_length.fq.gz" ftype="fastq.gz"/>
             <assert_command>
                 <has_text text="--maximum-length=50:30"/>
                 <has_text text="--pair-filter=both"/>

diff --git a/tools/cutadapt/test-data/A1.fastq.gz b/tools/cutadapt/test-data/A1.fastq.gz
diff --git a/tools/cutadapt/test-data/A2.fastq.gz b/tools/cutadapt/test-data/A2.fastq.gz
diff --git a/tools/cutadapt/test-data/cutadapt_action_lowercase.out b/tools/cutadapt/test-data/cutadapt_action_lowercase.out
@@ -1,5 +1,5 @@
 @prefix:1_13_573/1
-CGTCCGAANTAGCTACCACCCTGATTAGACAAAT
+cgtccgaantagctaccaccctgattagacaaat
 +
 )3%)&&&&!.1&(6:<'67..*,:75)'77&&&5
 @prefix:1_13_1259/1

diff --git a/tools/cutadapt/test-data/cutadapt_action_mask.out b/tools/cutadapt/test-data/cutadapt_action_mask.out
@@ -1,5 +1,5 @@
 @prefix:1_13_573/1
-CGTCCGAANTAGCTACCACCCTGATTAGACAAAT
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
 +
 )3%)&&&&!.1&(6:<'67..*,:75)'77&&&5
 @prefix:1_13_1259/1

diff --git a/tools/cutadapt/test-data/cutadapt_action_retain.out b/tools/cutadapt/test-data/cutadapt_action_retain.out
@@ -1,7 +1,7 @@
 @prefix:1_13_573/1
-CGTCCGAANTAGCTACCACCCTGATTAGACAAAT
+CGTCCGAANTAG
 +
-)3%)&&&&!.1&(6:<'67..*,:75)'77&&&5
+)3%)&&&&!.1&
 @prefix:1_13_1259/1
 AGCCGCTANGACGGGTTGGCCCTTAGACGTATCT
 +

diff --git a/tools/cutadapt/test-data/cutadapt_nextseq_out.fq.gz b/tools/cutadapt/test-data/cutadapt_nextseq_out.fq.gz
diff --git a/tools/cutadapt/test-data/cutadapt_out1_max_length.fq.gz b/tools/cutadapt/test-data/cutadapt_out1_max_length.fq.gz
diff --git a/tools/cutadapt/test-data/cutadapt_out1_min_length.fq.gz b/tools/cutadapt/test-data/cutadapt_out1_min_length.fq.gz
diff --git a/tools/cutadapt/test-data/cutadapt_out2_max_length.fq.gz b/tools/cutadapt/test-data/cutadapt_out2_max_length.fq.gz
diff --git a/tools/cutadapt/test-data/cutadapt_out2_min_length.fq.gz b/tools/cutadapt/test-data/cutadapt_out2_min_length.fq.gz
diff --git a/tools/cutadapt/test-data/cutadapt_trimmed.out.gz b/tools/cutadapt/test-data/cutadapt_trimmed.out.gz
diff --git a/tools/cutadapt/test-data/cutadapt_untrimmed.out.gz b/tools/cutadapt/test-data/cutadapt_untrimmed.out.gz
diff --git a/tools/cutadapt/test-data/unknown.fastq.gz b/tools/cutadapt/test-data/unknown.fastq.gz