Version 1.1.3, see Changelog

VERSION

-1.1.2
+1.1.3

docs/projectInfo.rst

@@ -31,6 +31,9 @@ We also put the paper on *bioRxiv*, please read all methodological details here:
 Change log
 ============================
 
+Version 1.1.3 (2018-08-06)
+    - minor, fixed a small issue in the Volcano plot (legends wrong and background color in the plot was not colored properly)
+
 Version 1.1.2 (2018-08-03)
     - fixed a bug that made the ``3.analyzeTF`` script fail in case when the number of permutations has been changed throughout the analysis or when the value is higher than the actual maximum number (thanks to Jonas Ungerbeck)
 

src/R/summaryFinal.R

@@ -1099,12 +1099,12 @@ for (significanceThresholdCur in par.l$significanceThresholds) {
       g = g + geom_rect(aes(xmin = -Inf,
                             xmax = 0,
                             ymin = -Inf, 
-                            ymax = Inf, color = par.l$colorConditions[2]),
+                            ymax = Inf, fill = par.l$colorConditions[2]),
                         alpha = .3) + 
           geom_rect(aes(xmin = 0,
                         xmax = Inf,
                         ymin = -Inf, 
-                        ymax = Inf, color = par.l$colorConditions[1]),
+                        ymax = Inf, fill = par.l$colorConditions[1]),
                     alpha = .3)
       g = g + scale_fill_manual(name = 'TF activity higher in', values = rev(par.l$colorConditions), labels = labelsConditionsNew)
     }

src/Snakefile

@@ -305,7 +305,7 @@ localrules: all
 
 rule all:
     input:
-        perm        = FINAL_DIR + "/" + compType + "summary.circular.pdf",
+        plots       = expand("{dir}/{compType}summary.{plotType}.pdf", dir = FINAL_DIR, compType = compType, plotType = ["circular", "volcano"]),
         summaryLogs = LOG_BENCHMARK_DIR + "/" + compType + "all.warnings.log"