X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=PackagesWithIssues.txt;h=6bfd60dd121b8059af289b6b5ad837836820c4a2;hb=d4ce54fa9729743502cb3962975105cacde5feb5;hp=8602a1f73ea0e5ab9d99a56550ffe0cedea9bfb1;hpb=41842e7e097d0a91fd8f1c1d1b0fff1d1df639ee;p=cran2deb.git

diff --git a/PackagesWithIssues.txt b/PackagesWithIssues.txt
index 8602a1f..6bfd60d 100644
--- a/PackagesWithIssues.txt
+++ b/PackagesWithIssues.txt
@@ -6,7 +6,7 @@ Package		Needs			License		Other
 RESOLVED
 ---------------------------------------------------------------------------------
 matlab					Rice U		added					
-rwt		matlab
+rwt		matlab			Rice U		
 arrayImpute	matlab
 rtiff					tiff + gpl	added
 sendplot	rtiff			
@@ -18,41 +18,45 @@ WriteXLS						(many) sysreq ignore added
 mlbench					added
 adabag		mlbench					
 ipred		mlbench					
-gwidgetsWWW	Rpad, rebuilt
+gWidgetsWWW	Rpad, rebuilt
 rgrs		xclip			added alias_run,sysreq
 scagnostics				scagnostics license -- added
 seewave		flac				    	added alias_run,sysreq			
 snpXpert	tcltk2					now builds 
 tlnise					tlnise license added
-toosm		tlnise					now builds					
-SuppDists						build bombs, DESCRIPTION needs space, patch added
+tsModel		tlnise					now builds					
 qAnalyst	SuppDists
 survcomp	SuppDists
+BayesTree						added one-line C++ patch 
+HAPim							added one-char DESCRIPTION patch
+MatchIt							added one-line patch
+race							remove debian/ from source tarball -- fixed in cran2deb	
+RJaCGH							contains zlib, added patch to remove it
+seqinr							contains zlib, added patch to remove it
+rSymPy							small patch for python path
+svSocket						small patch re tcl path
+rgrs							xclip sysreq/force added
+RLadyBug						added patch, now works
+dlmap							now works
+TSpadi							now works
+ash					statlib ?
+alphahull						now works
+sgeostat						now works
 
-OPEN ISSUES
+BLACKLISTED 
 ---------------------------------------------------------------------------------
 ADaCGH		tilingArray (BioC)
-BayesTree						C++ patch ?
 DAAGbio		limma (BioC ?)
 metaMA		limma (BioC ?)
 GFMaps		affy (BioC)
 GOSim		GO.db (BioC)
-Geneland	mapproj
-HAPim							odd build failure
-MatchIt							need small patch
 Metabonomic	PROcess (BioC ?)
-PhViD 		LBE ????
-RJaCGH							contains zlib, may need patch
-RLadyBug						needs small patch
-Rsymphony						build bombs, patch ?, Debian build
+PhViD 		LBE (BioC)
 SNPMaP		affxparser, SNPMaP.cdm (BioC)						
 SubpathwayMiner KEGG.db (BioC)
 gene2pathway    KEGG.db (BioC)
-TSpaid							build bombs, wild linking ?
-alphahull	removed ?
-ash					statlib ?
 bayesCGH	snapCGH (BioC ?)
-classGraoh	Rgraphviz (BioC ?)			
+classGraph	Rgraphviz (BioC ?)			
 gcExplorer	Rgraphviz (BioC ?)											
 logilasso	Rgraphviz (BioC ?)
 pcalg		Rgraphviz (BioC ?)
@@ -60,22 +64,13 @@ qdg		pcalg -> Rgraphviz
 celsius		BioBase (BioC ?)
 multtest	BioBase (BioC ?)
 hopach		BioBase (BioC ?)
-multtest	BioBase (BioC ?)
 GExMap		multtest (BioC)
 LMGene		multtest (BioC)
+PCS		multtest (BioC)
 crosshybDetector marray (disappread ?)
-dlmap		empty DESCRIPTION ?
-fPortfolio	RSymphony (which will be in Debian)
-lsa		Rstem ?
+lsa		Rstem 
 mpm		geneplotter (BioC ?)
-mvgraph		statDA ?
-rSymPy							small patch
-race							remove debian/ from source tarball ?				
-sabreR							contains binary, lintian override ?
-seqinr							contains zlib 
-sgeostat	license ? package gone ?
 sisus		annotate, Biobase (BioC ?)
-svSocket						small patch re tcl path
 
 REJECTED
 ---------------------------------------------------------------------------------------------
@@ -118,6 +113,7 @@ rankreg					non-profit
 rngwell19937				non-commercial
 spatialkernel				gpc library in non-commercial
 
+
 CANNOT BUILD
 ----------------------------------------------------------------------------------------------
 CarbonEL						Mac OS X only
@@ -129,10 +125,18 @@ Rsge							SGE required
 VhayuR							Vhauy required
 gputools						nvcc (>= 2.1)						
 klar							svmlight (non-commercial)
-rgrs							xclip
 rimage							C++ needs g++ 4.* update
+sabreR							contains binary, lintian override ?
 svGUI							komodo
 wgaim							asreml-r
 xgobi							Xgobi
 
 TODO:
+---------------------------------------------------------------------------------
+aroma.apd						requires aroma.light from BioC
+aroma.core						requires aroma.light from BioC
+IDPmisc							broken R file (!!)
+Rsymphony						build bombs, patch ?, Debian build exists
+SuppDists						build bombs, DESCRIPTION needs space, patch added
+cmprskContin						fortan95 compiler wants memory model
+mvgraph		statDA ?				need pkg-config ?