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 race                                                    remove debian/ from source tarball -- fixed in cran2deb
  35 RJaCGH                                                  contains zlib, added patch to remove it
  36 seqinr                                                  contains zlib, added patch to remove it
  37 rSymPy                                                  small patch for python path
  38
  39 OPEN ISSUES
  40 ---------------------------------------------------------------------------------
  41 ADaCGH          tilingArray (BioC)
  42 DAAGbio         limma (BioC ?)
  43 metaMA          limma (BioC ?)
  44 GFMaps          affy (BioC)
  45 GOSim           GO.db (BioC)
  46 Metabonomic     PROcess (BioC ?)
  47 PhViD           LBE ????
  48 RLadyBug                                                added small patch, still fails ??
  49 Rsymphony                                               build bombs, patch ?, Debian build
  50 SNPMaP          affxparser, SNPMaP.cdm (BioC)
  51 SubpathwayMiner KEGG.db (BioC)
  52 gene2pathway    KEGG.db (BioC)
  53 TSpadi                                                  build bombs on i386 but not amd64, wild linking ?
  54 alphahull       removed ?
  55 ash                                     statlib ?
  56 bayesCGH        snapCGH (BioC ?)
  57 classGraoh      Rgraphviz (BioC ?)
  58 gcExplorer      Rgraphviz (BioC ?)
  59 logilasso       Rgraphviz (BioC ?)
  60 pcalg           Rgraphviz (BioC ?)
  61 qdg             pcalg -> Rgraphviz
  62 celsius         BioBase (BioC ?)
  63 multtest        BioBase (BioC ?)
  64 hopach          BioBase (BioC ?)
  65 multtest        BioBase (BioC ?)
  66 GExMap          multtest (BioC)
  67 LMGene          multtest (BioC)
  68 crosshybDetector marray (disappread ?)
  69 dlmap           empty DESCRIPTION ?
  70 fPortfolio      RSymphony (which will be in Debian)
  71 lsa             Rstem ?
  72 mpm             geneplotter (BioC ?)
  73 mvgraph         statDA ?
  74 sabreR                                                  contains binary, lintian override ?
  75 sgeostat        license ? package `5gone ?
  76 sisus           annotate, Biobase (BioC ?)
  77 svSocket                                                small patch re tcl path
  78
  79 REJECTED
  80 ---------------------------------------------------------------------------------------------
  81 gpclib                                  non-commercial
  82 AIGIS           gpclib                  non-commercial
  83 RSurvey         gpclib                  non-commercial
  84 aspace          gpclib
  85 tossm           gpclib
  86 spatstat        gpclib
  87 DSpat           spatstat -> gpclib      non-commercial
  88 SGCS            spatstat -> gpclib
  89 arrayMissPattern spatstat -> gpclib
  90 ecespa          spatstat -> gpclib
  91 spatclus        spatstat -> gpclib
  92 CoCo                                    not-for-profit
  93 gmvalid         CoCo                    not-for-profit
  94 ConCalendar                             non-commercial
  95 mclust                                  non-free
  96 EMCC            mclust
  97 StatDA          mclust
  98 chemometrics    mclust
  99 clValid         mclust
 100 latentnetHRT    mclust
 101 sdcMicro        mclust
 102 vabayelMix      mclust
 103 mclust02                                non-free
 104 clustTool       mclust02
 105 clustvarsel     mclust02
 106 mapproj                                 non-commercial
 107 Geneland        mapproj                 non-commercial
 108 PTAk                                    non-commercial
 109 SDDA                                    non-commercial  CSIRO license
 110 optmatch                                non-commercial
 111 SpectralGEM     optmatch                non-commercial
 112 realized                                non-commercial
 113 asypow                                  acm non-commercial
 114 caMassClass                             non-commercial
 115 mapproj                                 non-commercial
 116 rankreg                                 non-profit
 117 rngwell19937                            non-commercial
 118 spatialkernel                           gpc library in non-commercial
 119
 120 CANNOT BUILD
 121 ----------------------------------------------------------------------------------------------
 122 CarbonEL                                                Mac OS X only
 123 ROracle                                                 requires Oracle libs
 124 RScaLAPAPCK     licese is free                          MPI, Blacs, ScaLAPACK, ...
 125 Rcplex                                                  CPLEX library
 126 Rlsf                                                    LSF required
 127 Rsge                                                    SGE required
 128 VhayuR                                                  Vhauy required
 129 gputools                                                nvcc (>= 2.1)
 130 klar                                                    svmlight (non-commercial)
 131 rgrs                                                    xclip
 132 rimage                                                  C++ needs g++ 4.* update
 133 svGUI                                                   komodo
 134 wgaim                                                   asreml-r
 135 xgobi                                                   Xgobi
 136
 137 TODO: