fastp unit test

test_src/fastp/R1.fq

@@ -0,0 +1,4 @@
+@NS500713:64:HFKJJBGXY:1:11101:1675:1101 1:N:0:TATAGCCT+GACCCCCA
+AAAAAAAAGCTACTTGGAGTACCAATAATAAAGTGAGCCCACCTTCCTGGTACCCAGACATTTCAGGAGGTCGGGAAA
++
+6AAAAAEEEEE/E/EA/E/AEA6EE//AEE66/AAE//EEE/E//E/AA/EEE/A/AEE/EEA//EEEEEEEE6EEAA

test_src/fastp/UMI_test.sh

@@ -0,0 +1,11 @@
+#!/bin/bash
+fastp -i R1.fq -o out.R1.fq -U --umi_loc=read1 --umi_len=8
+echo
+diff out.R1.fq  out.R1.fq_expected
+if [ "$?" = "0" ]
+then
+   echo "Success"
+else
+   echo "Fail!!!"
+   exit 1
+fi

test_src/fastp/out.R1.fq_expected

@@ -0,0 +1,4 @@
+@NS500713:64:HFKJJBGXY:1:11101:1675:1101:AAAAAAAA 1:N:0:TATAGCCT+GACCCCCA
+GCTACTTGGAGTACCAATAATAAAGTGAGCCCACCTTCCTGGTACCCAGACATTTCAGGAGGTCGGGAAA
++
+EEE/E/EA/E/AEA6EE//AEE66/AAE//EEE/E//E/AA/EEE/A/AEE/EEA//EEEEEEEE6EEAA

tests/app.yaml

@@ -353,6 +353,22 @@ cp2k:
         action: store_true
 
 #-------------------------------------------------------------------
+# fastp Test
+#-------------------------------------------------------------------
+fastp:
+  summary: fastp UNI test
+  build:
+    source_path: fastp
+    copy_files:
+    - ./**
+  schedule:
+    nodes: 1
+    slurm:
+  run:
+    modules: ['gcc', 'fastp']
+    cmds:
+      - '{{sched.test_cmd}} ./UMI_test.sh'
+
 # Trycycler Test
 #-------------------------------------------------------------------
 trycycler: