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--params : print the parameter settings
--params : print the parameter settings
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{{PhoneHomeParamDesc}}
== Required Parameters ==
== Required Parameters ==
== Optional Parmaeters ==
== Optional Parmaeters ==
=== output File (<code>--out</code>) ===
=== output File (<code>--out</code>) ===
Use <code>--out</code> (optional) to specify the name of the output file.
Use <code>--out</code> (optional) to specify the name of the output file.
It is output in [[Diff Format]] by default. Specify the filename with a .bam, .sam, .ubam extension to output in [[SAM/BAM Format]].
It is output in [[Diff Format]] by default. Specify the filename with a .bam, .sam, .ubam extension to output in [[SAM/BAM Format]].
=== Fields to Diff (<code>--all</code>, <code>--flag</code>, <code>--mapQual</code>, <code>--mate</code>, <code>--isize</code>, <code>--seq</code>, <code>--baseQual</code>, <code>--tags</code>, <code>--everyTag</code>, <code>--noCigar</code>, <code>--noPos</code>, )===
=== Fields to Diff (<code>--all</code>, <code>--flag</code>, <code>--mapQual</code>, <code>--mate</code>, <code>--isize</code>, <code>--seq</code>, <code>--baseQual</code>, <code>--tags</code>, <code>--everyTag</code>, <code>--noCigar</code>, <code>--noPos</code>, )===
'''OR use <code>--all</code> to diff all SAM/BAM record fields.
'''OR use <code>--all</code> to diff all SAM/BAM record fields.
=== Only print different fields (<code>--onlyDiffs</code>)===
=== Only print different fields (<code>--onlyDiffs</code>)===
Specify <code>--onlyDiffs</code> to only print the fields that are different, otherwise for any diff all the fields that are compared are printed. The read name is always printed.
Specify <code>--onlyDiffs</code> to only print the fields that are different, otherwise for any diff all the fields that are compared are printed. The read name is always printed.
=== Maximum Number of Records That Can be Allocated (<code>--recPoolSize</code>)===
=== Maximum Number of Records That Can be Allocated (<code>--recPoolSize</code>)===
