| Previous changeset 18:8cb783c81905 (2024-09-19) Next changeset 20:64388be6d510 (2024-10-18) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scanpy/ commit 0f11c0478793eaafc7d3bd2e7916ee546528b45f |
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modified:
macros.xml |
| b |
| diff -r 8cb783c81905 -r fc0321c000a3 macros.xml --- a/macros.xml Thu Sep 19 06:43:13 2024 +0000 +++ b/macros.xml Thu Oct 03 22:43:25 2024 +0000 |
| [ |
| @@ -1,6 +1,6 @@ <macros> <token name="@TOOL_VERSION@">1.10.2</token> - <token name="@VERSION_SUFFIX@">0</token> + <token name="@VERSION_SUFFIX@">1</token> <token name="@PROFILE@">21.09</token> <xml name="requirements"> <requirements> @@ -10,6 +10,7 @@ <requirement type="package" version="2.2.2">pandas</requirement> <requirement type="package" version="1.14.1">scipy</requirement> <requirement type="package" version="0.14.2">statsmodels</requirement> + <requirement type="package" version="0.3.5">fa2</requirement> <yield /> </requirements> </xml> @@ -587,7 +588,7 @@ ]]> </token> <token name="@CMD_SHOW_NONE@"><![CDATA[ - show=None + show=None ]]> </token> <token name="@CMD_VAR_NAMES_HEADER_CHECK@"><![CDATA[ @@ -1197,14 +1198,13 @@ </xml> <xml name="params_pl_paga"> <param argument="threshold" type="float" min="0" value="" optional="true" label="Threshold to draw edges" help="Do not draw edges for weights below this threshold. Set to 0 if you want all edges. Discarding low-connectivity edges helps in getting a much clearer picture of the graph."/> - <expand macro="param_groups"/> + <param argument="labels" type="text" value="" optional="true" label="The node labels" help="This defaults to the group labels stored in the categorical for which paga() has been computed"> + <expand macro="sanitize_query"/> + </param> <param argument="color" type="text" value="" label="The node colors" help="Gene name or obs. annotation, and also plots the degree of the abstracted graph when passing 'degree_dashed', 'degree_solid'."> <expand macro="sanitize_query"/> </param> <param argument="pos" type="data" format="tabular,csv,tsv" optional="true" label="Two-column tabular file storing the x and y coordinates for drawing"/> - <param argument="labels" type="text" value="" label="Comma-separated node labels" help="If none is provided, this defaults to the group labels stored in the categorical for which 'tl.paga' has been computed."> - <expand macro="sanitize_query"/> - </param> <expand macro="param_layout"/> <param argument="init_pos" type="data" format="tabular,csv,tsv" optional="true" label="Two-column tabular file storing the x and y coordinates for initializing the layout"/> <param argument="random_state" type="integer" value="0" label="For layouts with random initialization like 'fr', change this to use different intial states for the optimization. If 'None', the initial state is not reproducible."/> @@ -1237,9 +1237,9 @@ #if str($method.threshold) != '': threshold=$method.threshold, #end if - #if str($method.groups) != '': - #set $groups=([x.strip() for x in str($method.groups).split(',')]) - groups=$groups, + #if str($method.labels) != '': + #set $labels=([x.strip() for x in str($method.labels).split(',')]) + labels=$labels, #end if #if str($method.color) != '': #set $color=([x.strip() for x in str($method.color).split(',')]) @@ -1248,10 +1248,6 @@ #if $method.pos: pos=np.fromfile($method.pos, dtype=dt), #end if - #if str($method.labels) != '': - #set $labels=([x.strip() for x in str($method.labels).split(',')]) - labels=$labels, - #end if layout='$method.layout', #if $method.init_pos: init_pos=np.fromfile($method.init_pos, dtype=dt), @@ -1269,7 +1265,9 @@ dashed_edges='$method.dashed_edges', #end if single_component=$method.single_component, + #if str($method.fontsize) != '': fontsize=$method.fontsize, + #end if node_size_scale=$method.node_size_scale, node_size_power=$method.node_size_power, edge_width_scale=$method.edge_width_scale, |