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allow omitting gmap arg suboptimal_score, and make that the default

Michael Lawrence authored on 29/08/2017 22:10:50
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@@ -7,6 +7,8 @@
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 setClassUnion("GmapSnps_OR_NULL", c("GmapSnps", "NULL"))
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+setClassUnion("integer_OR_NULL", c("integer", "NULL"))
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+
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 setClass("GmapAlignerParam",
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          representation(genome = "GmapGenome",
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                         part = "character_OR_NULL",
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@@ -8,8 +8,6 @@
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 ### list.
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 ###
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-setClassUnion("integer_OR_NULL", c("integer", "NULL"))
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-
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 setClass("GsnapParam",
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          representation(max_mismatches = "integer_OR_NULL",
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                         suboptimal_levels = "integer",