diff macros_cheetah.xml @ 9:f3eb2291da05 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/raceid3 commit 82a18e57158136e265a26f27feb40f8dc13437bf

--- a/macros_cheetah.xml	Mon Dec 20 10:13:54 2021 +0000
+++ b/macros_cheetah.xml	Wed Aug 24 18:11:37 2022 +0000
@@ -104,7 +104,6 @@
 clust.clustexp\$cln = as.integer( '$clust.use.cln' )
 clust.clustexp\$clustnr = as.integer( '$clust.use.clustnr' )
 clust.clustexp\$bootnr = as.integer( '$clust.use.bootnr' )
-##clust.clustexp\$rseed = as.integer( '$clust.use.rseed' )
     #end if
 #end if
 
@@ -313,12 +312,12 @@
     <token name="@INSPECTTRAJECTORIES_CHEETAH@"><![CDATA[
 in.rdat = readRDS('${inputrds}')
 
-perform.stemID = FALSE
-perform.fateID = FALSE
-perform.fateID.sominspect = FALSE
+perform.stemid = FALSE
+perform.fateid = FALSE
+perform.fateid.sominspect = FALSE
 
 #if str($trjsid.basic.doit) == "yes"
-perform.stemID = TRUE
+perform.stemid = TRUE
 trjsid.getproj = formals(getproj)
 
 trjsid.numdiffgenes = 10
@@ -334,29 +333,29 @@
 #end if
 
 #if str($trjfid.basic.doit) == "yes":
-perform.fateID = TRUE
-trjfid.cellsfrom = formals(cellsfromtree)
-trjfid.filterset = formals(filterset)
-trjfid.getsom = formals(getsom)
-trjfid.procsom = formals(procsom)
-trjfid.plotheat = list()
+perform.fateid = TRUE
+trjfid_cellsfrom = formals(cellsfromtree)
+trjfid_filterset = formals(filterset)
+trjfid_getsom = formals(getsom)
+trjfid_procsom = formals(procsom)
+trjfid_plotheat = list()
 
-trjfid.cellsfrom\$z = string2numericvector( '$trjfid.basic.cellsfromz' )
+trjfid_cellsfrom\$z = string2numericvector( '$trjfid.basic.cellsfromz' )
     #if str($trjfid.basic.use.def) == "no":
 
-trjfid.filterset\$minexpr = as.integer( '$trjfid.basic.use.filterset_minexpr' )
-trjfid.filterset\$minnumber = as.integer( '$trjfid.basic.use.filterset_minnumber' )
-trjfid.getsom\$nb = as.numeric( '$trjfid.basic.use.getsom_nb' )
-trjfid.getsom\$alpha = as.numeric( '$trjfid.basic.use.getsom_alpha' )
-trjfid.procsom\$corthr = as.numeric( '$trjfid.basic.use.procsom_corthr' )
-trjfid.procsom\$minsom = as.integer( '$trjfid.basic.use.procsom_minsom' )
-trjfid.plotheat\$xgrid = as.logical( '$trjfid.basic.use.plotheat_xgrid' )
-trjfid.plotheat\$ygrid = as.logical( '$trjfid.basic.use.plotheat_ygrid' )
-trjfid.plotheat\$xlab = as.logical( '$trjfid.basic.use.plotheat_xlab' )
+trjfid_filterset\$minexpr = as.integer( '$trjfid.basic.use.filterset_minexpr' )
+trjfid_filterset\$minnumber = as.integer( '$trjfid.basic.use.filterset_minnumber' )
+trjfid_getsom\$nb = as.numeric( '$trjfid.basic.use.getsom_nb' )
+trjfid_getsom\$alpha = as.numeric( '$trjfid.basic.use.getsom_alpha' )
+trjfid_procsom\$corthr = as.numeric( '$trjfid.basic.use.procsom_corthr' )
+trjfid_procsom\$minsom = as.integer( '$trjfid.basic.use.procsom_minsom' )
+trjfid_plotheat\$xgrid = as.logical( '$trjfid.basic.use.plotheat_xgrid' )
+trjfid_plotheat\$ygrid = as.logical( '$trjfid.basic.use.plotheat_ygrid' )
+trjfid_plotheat\$xlab = as.logical( '$trjfid.basic.use.plotheat_xlab' )
     #end if
 
     #if str($trjfid.basic.som.doit) == "yes":
-perform.fateID.sominspect = TRUE
+perform.fateid.sominspect = TRUE
 
 trjfidsomi = list()
         #if str($trjfid.basic.som.use_genes.typer) == "genelist":