tests: update, bikeshed strings

algo/tests/should-get-tests/help-doc-examples.should

@@ -13,7 +13,7 @@
 0:Extracting windows
 
 # '-c designations', one time
-1:Segmenting V.D.J
+1:Designating V.D.J
 
 # '-c germlines'
 1:Discovering germlines

algo/tests/should-get-tests/help-examples.should

@@ -8,17 +8,17 @@ cd $VIDJIL_DIR ; sh help-examples.sh
 # Run 7 times (-h + 6 examples)
 7:vidjil-algo -- V.D.J recombinations analysis
 
-# '-c clone', three times
+# '-c clones', three times
 3: end of clones
 
 # '--filter-reads'
-1:Detecting
+1:Detecting V.D.J recombinations$
 
-# '-c windows'
-1:Extracting windows
+# '-c clones' / '-c windows'
+4:Detecting V.D.J recombinations and
 
 # '-c designations'
-1:Segmenting V.D.J
+1:Designating V.D.J recombinations
 
 # '-c germlines'
 1:Discovering germlines

algo/tests/should-get-tests/w-all.should

@@ -3,7 +3,7 @@
 # Testing '-w all' option
 
 $ The junctions are the reads
-1: considering all analyzed reads as windows
+1: considering all detected reads as windows
 1: found 13141 windows in 13153 reads
 
 $ Only the first 12 clones have 2 reads

algo/tests/should-get-tests/warning-similar.should

 !LAUNCH: $VIDJIL_DIR/$EXEC --all -w all -g $VIDJIL_DIR/germline/homo-sapiens.g $VIDJIL_DATA/s-somatic.fa ; cat out/s-somatic.vidjil | python $VIDJIL_DIR/tools/format_json.py -1
 
 $ No clustering due to -w all
-1: considering all analyzed reads as windows
+1: considering all detected reads as windows
 
 $ Warning on similar clones in json ('warn' because this is a clone in the first 10 clones)
 1: "code": "W53", "level": "warn", "msg": "Similar to clone #1 .* IGHV3-48.01 .* IGHJ4.02"