Mercurial > repos > iuc > hisat2
comparison hisat2_macros.xml @ 20:6ab42baa56e9 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hisat2 commit d9ebd463afa1a41799aa53e9a68d0ea51093007e
| author | iuc |
|---|---|
| date | Wed, 30 May 2018 12:02:20 -0400 |
| parents | d5fe9aead222 |
| children | 0c16cad5e03b |
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| 19:fbf98f24097b | 20:6ab42baa56e9 |
|---|---|
| 25 <param argument="--no-discordant" name="no_discordant" type="boolean" truevalue="--no-discordant" falsevalue="" checked="False" label="Disable no-discordant behavior" help="--no-discordant; By default, `hisat2` looks for discordant alignments if it cannot find any concordant alignments. A discordant alignment is an alignment where both mates align uniquely, but that does not satisfy the paired-end constraints (`--fr`/`--rf`/`--ff`, `-I`, `-X`); default: False"/> | 25 <param argument="--no-discordant" name="no_discordant" type="boolean" truevalue="--no-discordant" falsevalue="" checked="False" label="Disable no-discordant behavior" help="--no-discordant; By default, `hisat2` looks for discordant alignments if it cannot find any concordant alignments. A discordant alignment is an alignment where both mates align uniquely, but that does not satisfy the paired-end constraints (`--fr`/`--rf`/`--ff`, `-I`, `-X`); default: False"/> |
| 26 </when> | 26 </when> |
| 27 </conditional> | 27 </conditional> |
| 28 | 28 |
| 29 </xml> | 29 </xml> |
| 30 | |
| 31 <xml name="dbKeyActions"> | |
| 32 <actions> | |
| 33 <conditional name="reference_genome.source"> | |
| 34 <when value="indexed"> | |
| 35 <action type="metadata" name="dbkey"> | |
| 36 <option type="from_data_table" name="hisat2_indexes" column="1"> | |
| 37 <filter type="param_value" ref="reference_genome.index" column="0"/> | |
| 38 </option> | |
| 39 </action> | |
| 40 </when> | |
| 41 <when value="history"> | |
| 42 <action type="metadata" name="dbkey"> | |
| 43 <option type="from_param" name="reference_genome.history_item" param_attribute="dbkey" /> | |
| 44 </action> | |
| 45 </when> | |
| 46 </conditional> | |
| 47 </actions> | |
| 48 </xml> | |
| 49 | |
| 30 </macros> | 50 </macros> |