bio-affy 0.1.0.alpha.1

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Files changed (72) hide show
  1. data/.document +5 -0
  2. data/.rspec +1 -0
  3. data/Gemfile +15 -0
  4. data/Gemfile.lock +32 -0
  5. data/LICENSE.txt +20 -0
  6. data/README.rdoc +33 -0
  7. data/Rakefile +77 -0
  8. data/VERSION +1 -0
  9. data/bin/bio-affy +80 -0
  10. data/bio-affy.gemspec +128 -0
  11. data/ext/DESCRIPTION +11 -0
  12. data/ext/HISTORY +3 -0
  13. data/ext/LICENSE +456 -0
  14. data/ext/NAMESPACE +2 -0
  15. data/ext/R/check.cdf.type.R +18 -0
  16. data/ext/R/read.cdffile.list.R +23 -0
  17. data/ext/R/read.celfile.R +11 -0
  18. data/ext/R/read.celfile.header.R +37 -0
  19. data/ext/R/read.probematrices.R +29 -0
  20. data/ext/README_BIOLIB +36 -0
  21. data/ext/aclocal.m4 +32 -0
  22. data/ext/configure +4898 -0
  23. data/ext/configure.in +51 -0
  24. data/ext/man/check.cdf.type.Rd +22 -0
  25. data/ext/man/read.cdffile.list.Rd +20 -0
  26. data/ext/man/read.celfile.Rd +23 -0
  27. data/ext/man/read.celfile.header.Rd +22 -0
  28. data/ext/man/read.celfile.probeintensity.matrices.Rd +31 -0
  29. data/ext/src/CMakeLists.txt +39 -0
  30. data/ext/src/Makevars.in +3 -0
  31. data/ext/src/Makevars.win +2 -0
  32. data/ext/src/Rakefile +43 -0
  33. data/ext/src/biolib_affyio.c +416 -0
  34. data/ext/src/biolib_affyio.h +132 -0
  35. data/ext/src/biolib_affyio.o +0 -0
  36. data/ext/src/fread_functions.c +871 -0
  37. data/ext/src/fread_functions.h +60 -0
  38. data/ext/src/fread_functions.o +0 -0
  39. data/ext/src/libaffyext.so +0 -0
  40. data/ext/src/mkrf.log +11 -0
  41. data/ext/src/mkrf_conf.rb +6 -0
  42. data/ext/src/read_abatch.c +5484 -0
  43. data/ext/src/read_abatch.h +63 -0
  44. data/ext/src/read_abatch.o +0 -0
  45. data/ext/src/read_bpmap.c +888 -0
  46. data/ext/src/read_bpmap.o +0 -0
  47. data/ext/src/read_cdf.h +347 -0
  48. data/ext/src/read_cdf_xda.c +1342 -0
  49. data/ext/src/read_cdf_xda.o +0 -0
  50. data/ext/src/read_cdffile2.c +1576 -0
  51. data/ext/src/read_cdffile2.o +0 -0
  52. data/ext/src/read_celfile_generic.c +2061 -0
  53. data/ext/src/read_celfile_generic.h +33 -0
  54. data/ext/src/read_celfile_generic.o +0 -0
  55. data/ext/src/read_clf.c +870 -0
  56. data/ext/src/read_clf.o +0 -0
  57. data/ext/src/read_generic.c +1446 -0
  58. data/ext/src/read_generic.h +144 -0
  59. data/ext/src/read_generic.o +0 -0
  60. data/ext/src/read_pgf.c +1337 -0
  61. data/ext/src/read_pgf.o +0 -0
  62. data/lib/bio-affy.rb +5 -0
  63. data/lib/bio/affy.rb +7 -0
  64. data/lib/bio/affyext.rb +23 -0
  65. data/lib/bio/libaffyext.so +0 -0
  66. data/spec/bio-affy_spec.rb +22 -0
  67. data/spec/spec_helper.rb +13 -0
  68. data/test/data/affy/GSM103328.CEL.gz +0 -0
  69. data/test/data/affy/GSM103329.CEL.gz +0 -0
  70. data/test/data/affy/GSM103330.CEL.gz +0 -0
  71. data/test/data/affy/MG_U74Av2.CDF.gz +0 -0
  72. metadata +190 -0

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