clean dotfiles

.Rbuildignore

@@ -1,16 +1,11 @@
-sandbox
-vignettes/vigsrc
 .gitignore
-README.md
 ^docs$
 vignettes/P00924.fasta
 vignettes/PXD000001_mztab.txt
 vignettes/TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01-20141210.mzML
 vignettes/TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01.mzXML
 vignettes/output*
 vignettes/*_cache
-docs
 vignettes/cache
-vignettes/figure
 .git
 .github

.gitignore

@@ -1,33 +1,14 @@
 IMPORTANT
-sandbox/
 vignettes/Bioc2013_poster.pdf
 vignettes/RforProteomics.pdf
 vignettes/RProtVis.html
-vignettes/vigsrc/F063721.dat-mztab.txt
-vignettes/vigsrc/P00924.fasta
-vignettes/vigsrc/PXD000001_mztab.txt
-vignettes/vigsrc/TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01.mzXML
-vignettes/vigsrc/cache/
-vignettes/vigsrc/figure/
 vignettes/cache
-vignettes/figure
 vignettes/RProtVis_cache
 vignettes/RProtVis_files
 vignettes/TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01.mzXML
 vignettes/PXD000001_mztab.txt
 vignettes/TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01-20141210.mzML
 vignettes/TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01.mzXML
-vignettes/vigsrc/c_elegans_A_3_1_21Apr10_Draco_10-03-04.mzML
-vignettes/vigsrc/c_elegans_A_3_3_21Apr10_Draco_10-03-04.mzML
-vignettes/vigsrc/c_elegans_B_2_1_21Apr10_Draco_10-03-05.mzML
-vignettes/vigsrc/c_elegans_B_2_3_21Apr10_Draco_10-03-05.mzML
-vignettes/vigsrc/c_elegans_C_1_1_21Apr10_Draco_10-03-06.mzML
-vignettes/vigsrc/c_elegans_C_1_3_21Apr10_Draco_10-03-06.mzML
-vignettes/vigsrc/c_elegans_D_1_1_21Apr10_Draco_10-03-07.mzML
-vignettes/vigsrc/c_elegans_D_1_3_21Apr10_Draco_10-03-07.mzML
-vignettes/vigsrc/c_elegans_E_3_1_21Apr10_Draco_10-03-04.mzML
-vignettes/vigsrc/c_elegans_E_3_3_21Apr10_Draco_10-03-04.mzML
-vignettes/vigsrc/c_elegans_fwd_rev.fasta
 docs/articles/TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01-20141210.mzML
 vignettes/P00924.fasta
 vignettes/PXD000001_mztab.txt

NEWS.md

@@ -1,8 +1,13 @@
 # RforProteomics 1
 
+## Changes in version 1.39.2
+
+- Clearn up .gitignore and .Rbuildignore (in the hope to fix the
+  'figure not found error')
+
 ## Changes in version 1.39.1
 
-- change paths to figures.
+- Change paths to figures.
 
 ## Changes in version 1.39.0