# HG changeset patch
# User lecorguille
# Date 1491562552 14400
# Node ID 66fe5a2237f34b1bc7f832f168b340ff9120269e
# Parent  cbf292c32002382f6adda744cabc1450a50a2e21
planemo upload commit c897279aa8cae0a4ad889bb05b143f32d2b6d712

diff -r cbf292c32002 -r 66fe5a2237f3 lib.r
--- a/lib.r	Fri Apr 07 04:03:36 2017 -0400
+++ b/lib.r	Fri Apr 07 06:55:52 2017 -0400
@@ -50,8 +50,8 @@
         #}
         # include CAMERA non-annotated compounds, and snr retrieval
         # comb 2+ - used on Table 1
-        ionAnnotP2plus = get.annot(axP, allowMiss=listArguments[["allowMiss"]], xset=xsetPnofill,toexclude=listArguments[["toexclude"]])
-        ionAnnotN2plus = get.annot(axN, polarity="negative", allowMiss=listArguments[["allowMiss"]], xset=xsetNnofill,toexclude=listArguments[["toexclude"]])
+        ionAnnotP2plus = get.annot(xaP, allowMiss=listArguments[["allowMiss"]], xset=xsetPnofill,toexclude=listArguments[["toexclude"]])
+        ionAnnotN2plus = get.annot(xaN, polarity="negative", allowMiss=listArguments[["allowMiss"]], xset=xsetNnofill,toexclude=listArguments[["toexclude"]])
         ionAnnot = combineMolIon(ionAnnotP2plus, ionAnnotN2plus)
         print(sum(ionAnnot$molIon[,3]==1))
         print(sum(ionAnnot$molIon[,3]==0))