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comparison multigps.xml @ 22:2e44fe6a99c7 draft

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Uploaded
author greg
date Tue, 13 Dec 2016 15:07:21 -0500
parents 6ded14465b74
children ffefb407c22a
comparison
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21:6ded14465b74 22:2e44fe6a99c7
23 --threads="\${GALAXY_SLOTS:-4}" 23 --threads="\${GALAXY_SLOTS:-4}"
24 ############################ 24 ############################
25 ## Advanced options 25 ## Advanced options
26 ############################ 26 ############################
27 #set aoc = $advanced_options_cond 27 #set aoc = $advanced_options_cond
28 #set bmsc = $aoc.binding_model_smoothing_cond
29 #set gmsc = $aoc.gauss_model_smoothing_cond
30 #set rbec = $aoc.report_binding_events_cond
31 #set rloc = $aoc.reads_limits_options_cond
32 #set sdc = $aoc.scale_data_cond
33 #set umc = $aoc.use_motif_cond
34 #set mpc = $umc.multigps_priors_cond
35 #set bmc = $mpc.both_motifs_cond
36 #set mfoc = $bmc.nomotifprior_cond
37 #set rgc = $umc.reference_genome_cond
28 #if str($aoc.advanced_options) == 'display': 38 #if str($aoc.advanced_options) == 'display':
29 #set bmsc = $aoc.binding_model_smoothing_cond
30 #set gmsc = $aoc.gauss_model_smoothing_cond
31 #set rbec = $aoc.report_binding_events_cond
32 #set rloc = $aoc.reads_limits_options_cond
33 #set sdc = $aoc.scale_data_cond
34 #set umc = $aoc.use_motif_cond
35 #set mpc = $umc.multigps_priors_cond
36 #set bmc = $mpc.both_motifs_cond
37 #set rgc = $umc.reference_genome_cond
38 ############################ 39 ############################
39 ## Limits on how many reads 40 ## Limits on how many reads
40 ############################ 41 ############################
41 #if str($rloc.reads_limits) == 'yes': 42 #if str($rloc.reads_limits) == 'yes':
42 --fixedpb $rloc.fixedpb 43 --fixedpb $rloc.fixedpb
130 --memenmotifs $bmc.memenmotifs 131 --memenmotifs $bmc.memenmotifs
131 --mememinw $bmc.mememinw 132 --mememinw $bmc.mememinw
132 --mememaxw $bmc.mememaxw 133 --mememaxw $bmc.mememaxw
133 #else: 134 #else:
134 --nomotifs 135 --nomotifs
135 #set mfoc = $bmc.nomotifprior_cond
136 --nomotifprior $mfoc.nomotifprior 136 --nomotifprior $mfoc.nomotifprior
137 #if str($mfoc.nomotifprior) == 'yes': 137 #if str($mfoc.nomotifprior) == 'yes':
138 --memenmotifs $mfoc.memenmotifs 138 --memenmotifs $mfoc.memenmotifs
139 --mememinw $mfoc.mememinw 139 --mememinw $mfoc.mememinw
140 --mememaxw $mfoc.mememaxw 140 --mememaxw $mfoc.mememaxw