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USAGE:
ThisIsAVeryLongProgramNameDesignedToTestSpacePrintWhichUsedToHaveProblem
sWithLongProgramNamesIThinkItIsNowL
ongEnough [-l <int>] [-u <float
lte 1>] [-b <float lte 1>] [-z
<filename>] [-x <filename>] [-s
<name string>] [-d] [-g <negative
int>] [-f <negative int>] -n <homer
|marge|bart|lisa|maggie> ... [--]
[--version] [-h] <1|2|3> ...
Where:
-l <int>, --limit <int>
Max number of alignments allowed
-u <float lte 1>, --upperBound <float lte 1>
upper percentage bound
-b <float lte 1>, --lowerBound <float lte 1>
lower percentage bound
-z <filename>, --filename2 <filename>
Sequence 2 filename (FASTA format)
-x <filename>, --filename1 <filename>
Sequence 1 filename (FASTA format)
-s <name string>, --scoring--Matrix <name string>
Scoring Matrix name
-d, --isDna
The input sequences are DNA
-g <negative int>, --gap-Extend <negative int>
The cost for each extension of a gap
-f <negative int>, --gapCreate <negative int>
The cost of creating a gap
-n <homer|marge|bart|lisa|maggie>, --name <homer|marge|bart|lisa
|maggie> (accepted multiple times)
(required) Name to print. This is a long, nonsensical message to test
line wrapping. Hopefully it works.
--, --ignore_rest
Ignores the rest of the labeled arguments following this flag.
--version
Displays version information and exits.
-h, --help
Displays usage information and exits.
<1|2|3> (accepted multiple times)
Number of times to print
Command description message. This is a long multi-line message meant to
test line wrapping. This is more text that doesn't really do anything
besides take up lots of space that otherwise might be used for something
real. That should be enough, don't you think?
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