PackagesWithIssues.txt

   1 debian-i386
   2
   3 Package         Needs                   License         Other
   4 =================================================================================
   5
   6 RESOLVED
   7 ---------------------------------------------------------------------------------
   8 matlab                                  Rice U          added
   9 rwt             matlab                  Rice U
  10 arrayImpute     matlab
  11 rtiff                                   tiff + gpl      added
  12 sendplot        rtiff
  13 BARD                                    AGPL            added
  14 DierckxSpline                                           new version builds
  15 FAiR                                    AGPL            added
  16 StatFingerprints tcltk2                                 now builds
  17 WriteXLS                                                (many) sysreq ignore added
  18 mlbench                                 added
  19 adabag          mlbench
  20 ipred           mlbench
  21 gWidgetsWWW     Rpad, rebuilt
  22 rgrs            xclip                   added alias_run,sysreq
  23 scagnostics                             scagnostics license -- added
  24 seewave         flac                                    added alias_run,sysreq
  25 snpXpert        tcltk2                                  now builds
  26 tlnise                                  tlnise license added
  27 tsModel         tlnise                                  now builds
  28 SuppDists                                               build bombs, DESCRIPTION needs space, patch added
  29 qAnalyst        SuppDists
  30 survcomp        SuppDists
  31 BayesTree                                               added one-line C++ patch
  32 HAPim                                                   added one-char DESCRIPTION patch
  33 MatchIt                                                 added one-line patch
  34
  35 OPEN ISSUES
  36 ---------------------------------------------------------------------------------
  37 ADaCGH          tilingArray (BioC)
  38 DAAGbio         limma (BioC ?)
  39 metaMA          limma (BioC ?)
  40 GFMaps          affy (BioC)
  41 GOSim           GO.db (BioC)
  42 Geneland        mapproj
  43 Metabonomic     PROcess (BioC ?)
  44 PhViD           LBE ????
  45 RLadyBug                                                added small patch, still fails ??
  46 RJaCGH                                                  contains zlib, may need patch
  47 Rsymphony                                               build bombs, patch ?, Debian build
  48 SNPMaP          affxparser, SNPMaP.cdm (BioC)
  49 SubpathwayMiner KEGG.db (BioC)
  50 gene2pathway    KEGG.db (BioC)
  51 TSpaid                                                  build bombs, wild linking ?
  52 alphahull       removed ?
  53 ash                                     statlib ?
  54 bayesCGH        snapCGH (BioC ?)
  55 classGraoh      Rgraphviz (BioC ?)
  56 gcExplorer      Rgraphviz (BioC ?)
  57 logilasso       Rgraphviz (BioC ?)
  58 pcalg           Rgraphviz (BioC ?)
  59 qdg             pcalg -> Rgraphviz
  60 celsius         BioBase (BioC ?)
  61 multtest        BioBase (BioC ?)
  62 hopach          BioBase (BioC ?)
  63 multtest        BioBase (BioC ?)
  64 GExMap          multtest (BioC)
  65 LMGene          multtest (BioC)
  66 crosshybDetector marray (disappread ?)
  67 dlmap           empty DESCRIPTION ?
  68 fPortfolio      RSymphony (which will be in Debian)
  69 lsa             Rstem ?
  70 mpm             geneplotter (BioC ?)
  71 mvgraph         statDA ?
  72 rSymPy                                                  small patch
  73 race                                                    remove debian/ from source tarball ?
  74 sabreR                                                  contains binary, lintian override ?
  75 seqinr                                                  contains zlib
  76 sgeostat        license ? package gone ?
  77 sisus           annotate, Biobase (BioC ?)
  78 svSocket                                                small patch re tcl path
  79
  80 REJECTED
  81 ---------------------------------------------------------------------------------------------
  82 gpclib                                  non-commercial
  83 AIGIS           gpclib                  non-commercial
  84 RSurvey         gpclib                  non-commercial
  85 aspace          gpclib
  86 tossm           gpclib
  87 spatstat        gpclib
  88 DSpat           spatstat -> gpclib      non-commercial
  89 SGCS            spatstat -> gpclib
  90 arrayMissPattern spatstat -> gpclib
  91 ecespa          spatstat -> gpclib
  92 spatclus        spatstat -> gpclib
  93 CoCo                                    not-for-profit
  94 gmvalid         CoCo                    not-for-profit
  95 ConCalendar                             non-commercial
  96 mclust                                  non-free
  97 EMCC            mclust
  98 StatDA          mclust
  99 chemometrics    mclust
 100 clValid         mclust
 101 latentnetHRT    mclust
 102 sdcMicro        mclust
 103 vabayelMix      mclust
 104 mclust02                                non-free
 105 clustTool       mclust02
 106 clustvarsel     mclust02
 107 mapproj                                 non-commercial
 108 Geneland        mapproj                 non-commercial
 109 PTAk                                    non-commercial
 110 SDDA                                    non-commercial  CSIRO license
 111 optmatch                                non-commercial
 112 SpectralGEM     optmatch                non-commercial
 113 realized                                non-commercial
 114 asypow                                  acm non-commercial
 115 caMassClass                             non-commercial
 116 mapproj                                 non-commercial
 117 rankreg                                 non-profit
 118 rngwell19937                            non-commercial
 119 spatialkernel                           gpc library in non-commercial
 120
 121 CANNOT BUILD
 122 ----------------------------------------------------------------------------------------------
 123 CarbonEL                                                Mac OS X only
 124 ROracle                                                 requires Oracle libs
 125 RScaLAPAPCK     licese is free                          MPI, Blacs, ScaLAPACK, ...
 126 Rcplex                                                  CPLEX library
 127 Rlsf                                                    LSF required
 128 Rsge                                                    SGE required
 129 VhayuR                                                  Vhauy required
 130 gputools                                                nvcc (>= 2.1)
 131 klar                                                    svmlight (non-commercial)
 132 rgrs                                                    xclip
 133 rimage                                                  C++ needs g++ 4.* update
 134 svGUI                                                   komodo
 135 wgaim                                                   asreml-r
 136 xgobi                                                   Xgobi
 137
 138 TODO: