Mercurial > repos > richard-burhans > segalign

comparison segalign.xml @ 2:9e34b25a8670 draft

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planemo upload for repository https://github.com/richard-burhans/galaxytools/tree/main/tools/segalign commit 288c3e1887d4c13dcc922c612957460471977ff0
author richard-burhans
date Thu, 18 Apr 2024 17:17:12 +0000
parents 5c72425b7f1b
children 36cafb694dd2
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1:d3f11ae6790c 2:9e34b25a8670
28 ## Mode ---------------------------------------------------------------- 28 ## Mode ----------------------------------------------------------------
29 29
30 #if str($mode.mode_selector) == "segalign" 30 #if str($mode.mode_selector) == "segalign"
31 #if str($mode.diagonal_partition_options.diagonal_partition) == "true" 31 #if str($mode.diagonal_partition_options.diagonal_partition) == "true"
32 #set $segalign_mode = "segalign_diagonal_partition" 32 #set $segalign_mode = "segalign_diagonal_partition"
33 '$__tool_directory__/run_segalign_diagonal_partition' 33 ## explicitly calling bash to bypass a pulsar bug
34 ## https://github.com/galaxyproject/pulsar/issues/341
35 bash '$__tool_directory__/run_segalign_diagonal_partition'
34 --tool_directory '$__tool_directory__' 36 --tool_directory '$__tool_directory__'
35 --max_segments '$mode.diagonal_partition_options.max_segments' 37 --max_segments '$mode.diagonal_partition_options.max_segments'
36 #else 38 #else
37 #set $segalign_mode = "segalign" 39 #set $segalign_mode = "segalign"
38 run_segalign 40 run_segalign