updated test files to match output of bowtie2 V2.5.2

GuyTeichman · Oct 17, 2023 · 1b0f4e3 · 1b0f4e3
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diff --git a/...aired/truth/02_bowtie2_align_paired_end/bowtie2-align_reads_1_trimmed_reads_2_trimmed.log b/...aired/truth/02_bowtie2_align_paired_end/bowtie2-align_reads_1_trimmed_reads_2_trimmed.log
@@ -7,18 +7,6 @@ Warning: skipping mate #1 of read '7:NM_022658:1912:184' because it was < 2 char
 Warning: minimum score function gave negative number in --local mode for mate #1 of read '9:NM_174914:46:212; setting to 0 instead
 Warning: skipping mate #1 of read '9:NM_174914:46:212' because length (0) <= # seed mismatches (0)
 Warning: skipping mate #1 of read '9:NM_174914:46:212' because it was < 2 characters long
-10000 reads; of these:
-  10000 (100.00%) were paired; of these:
-    875 (8.75%) aligned concordantly 0 times
-    6431 (64.31%) aligned concordantly exactly 1 time
-    2694 (26.94%) aligned concordantly >1 times
-    ----
-    875 pairs aligned concordantly 0 times; of these:
-      0 (0.00%) aligned discordantly 1 time
-    ----
-    875 pairs aligned 0 times concordantly or discordantly; of these:
-      1750 mates make up the pairs; of these:
-        1481 (84.63%) aligned 0 times
-        258 (14.74%) aligned exactly 1 time
-        11 (0.63%) aligned >1 times
-92.59% overall alignment rate
+Error, fewer reads in file specified with -1 than in file specified with -2
+terminate called after throwing an instance of 'int'
+(ERR): bowtie2-align exited with value 3