IBU-8344: Tweak help message

ebi-pf-team · May 8, 2019 · e36a4d2 · e36a4d2
1 parent 93e87cb
commit e36a4d2
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Showing 2 changed files with 4 additions and 1 deletion.
diff --git a/core/jms-implementation/src/main/java/uk/ac/ebi/interpro/scan/jms/main/AbstractI5Runner.java b/core/jms-implementation/src/main/java/uk/ac/ebi/interpro/scan/jms/main/AbstractI5Runner.java
@@ -24,6 +24,9 @@ public class AbstractI5Runner {
     private static final Logger LOGGER = Logger.getLogger(AbstractI5Runner.class.getName());
 
     private static final HelpFormatter HELP_FORMATTER = new HelpFormatter();
+    static {
+        HELP_FORMATTER.setWidth(120);
+    }
     private static final String HELP_MESSAGE_TITLE =
             "java -XX:+UseParallelGC -XX:ParallelGCThreads=2 -XX:+AggressiveOpts " +
                     "-XX:+UseFastAccessorMethods -Xms128M -Xmx2048M -jar interproscan-5.jar";

diff --git a/core/jms-implementation/src/main/java/uk/ac/ebi/interpro/scan/jms/main/I5Option.java b/core/jms-implementation/src/main/java/uk/ac/ebi/interpro/scan/jms/main/I5Option.java
@@ -27,7 +27,7 @@ public enum I5Option {
     OUTPUT_FILE("outfile", "o", false, "Optional explicit output file name (relative or absolute path).  Note that this option, the --output-dir (-d) option and the --output-file-base (-b) option are mutually exclusive. If this option is given, you MUST specify a single output format using the -f option.  The output file name will not be modified. Note that specifying an output file name using this option OVERWRITES ANY EXISTING FILE.", "EXPLICIT_OUTPUT_FILENAME", false, Mode.SET_OF_ALL_MODES),
     OUTPUT_DIRECTORY("output-dir", "d", false, "Optional, output directory.  Note that this option, the --outfile (-o) option and the --output-file-base (-b) option are mutually exclusive. The output filename(s) are the same as the input filename, with the appropriate file extension(s) for the output format(s) appended automatically .", "OUTPUT-DIR", false, Mode.SET_OF_ALL_MODES),
     ANALYSES("applications", "appl", false, "Optional, comma separated list of analyses.  If this option is not set, ALL analyses will be run. ", "ANALYSES", true, Mode.SET_OF_STANDARD_MODES),
-    INC_ANALYSES("incl-deprecated-applications", "incldepappl", false, "Optional, comma separated list of deprecated analyses that you want included.  If this option is not set, deprecated analyses will not run. ", "INC-DEP-ANALYSES", true, Mode.SET_OF_STANDARD_MODES),
+    INC_ANALYSES("incl-dep-applications", "incldepappl", false, "Optional, comma separated list of deprecated analyses that you want included.  If this option is not set, deprecated analyses will not run. ", "INC-DEP-ANALYSES", true, Mode.SET_OF_STANDARD_MODES),
     EXC_ANALYSES("excl-applications", "exclappl", false, "Optional, comma separated list of analyses you want to exclude.  ", "EXC-ANALYSES", true, Mode.SET_OF_STANDARD_MODES),
     PRIORITY("priority", "p", false, "Minimum message priority that the worker will accept (0 low -> 9 high).", "JMS-PRIORITY", false, Mode.SET_OF_NO_MODES),
     IPRLOOKUP("iprlookup", "iprlookup", false, "Also include lookup of corresponding InterPro annotation in the TSV and GFF3 output formats.", null, false, Mode.SET_OF_STANDARD_MODES),