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Sorry if multiple copies, got issues with mail.... Cc'ing list for archive.
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Here are all missing jar to build goby, and some giby submodules. For some, I have the URL to get it, I did not check all sub-dependencies of those. For others, I do not knwo where they come from. ** related packages are CampagneLaboratory (gobi owners) repositories, needed by Gobi. This is already 1 dependency license issue (no military). It also neededs, jlapack etc.. where we find packages in contrib. **** Goby JSAP-2.1.jar 3 years ago Minimal core files for the Goby project. Will copy files for release … [msrdanov] -- http://sourceforge.net/projects/jsap/ bzip2.jar a year ago Add bzip2 jar from apache (obtained from http://www.kohsuke.org/bzip2//) [fac2003] -- http://www.kohsuke.org/bzip2 ?? dsiutils-1.0.12.jar 2 years ago Upgrade to recent versions of fastutil and dsi [fac2003] ?? edu.mssm.crover.cli.jar 3 years ago Bring in some alignment modesand support from icb-hadoop project (wit… [msrdanov] ?? fastutil-6.3.jar 2 years ago Add a test and upgrade to fastutil 6.3 [fac2003] guava-r08.jar 11 months ago Add ambiguity field in alignment entries and corresponding field in h… [fac2003] -- http://code.google.com/p/guava-libraries/ icb-utils.jar a year ago * Updated icb-utils.jar since TsvLineIterator and TsvToFromMap now su… [kcdorff] -- https://github.com/CampagneLaboratory/icb-utils ?? junitx-5.1.jar 2 years ago Add Junitx jar (assertEquals for files) [fac2003] pj20091226.jar 3 years ago Fix chisquare calculation bug. [fac2003] -- http://www.cs.rit.edu/~ark/pj.shtml ?? reflections-0.9.5.jar 11 months ago Add ambiguity field in alignment entries and corresponding field in h… [fac2003] ?? reflections-0.9.5.one-jar.jar 11 months ago Add ambiguity field in alignment entries and corresponding field in h… [fac2003] squil.jar a year ago The RandomAccessSequenceCache had problems with bases that weren't G… [kcdorff] -- https://github.com/CampagneLaboratory/squil ?? tisim-api.jar 3 years ago TEPSS (tisim) and not all of tissueinfo is used in some goby modes/fi… [msrdanov] ** icb-ant-taks -- https://github.com/CampagneLaboratory/icb-ant-tasks ** bdval-api.jar 3 years ago bdval is needed by goby (for the compound file code) [msrdanov] -- from https://github.com/CampagneLaboratory/bdval/tree/master/lib/tct Rserve 3 years ago As it turns out the class ResorceFinder in icb-utils has changed beha… [msrdanov] jlapack 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] | (found in contrib libjlapack-java, package issue on web site) Needs ?? blas_simple.jar 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] ?? f2jutil.jar 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] ??lapack.jar 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] ?? lapack_simple.jar 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] ?? xerbla.jar 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] ?? tct 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] -- http://chagall.med.cornell.edu/ , can't find jar source or binary ---- native 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] * Native arch libraries tct-core.jar 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] tct-matrix.jar 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] JSAP-2.1.jar 4 years ago Copy source code from edu.cornell.med.icb.biomarkers package in tissu… [msrdanov] -- http://sourceforge.net/projects/jsap/ colt.jar 4 years ago Copy source code from edu.cornell.med.icb.biomarkers package in tissu… [msrdanov] -- http://acs.lbl.gov/software/colt/ -- !! no military ??dsiutils-1.0.10.jar 3 years ago Update dsi utils to 1.0.10 to be consistent with other supporting jar… [msrdanov] ??dsiutils-license.txt 4 years ago License files (LGPL) for dsiutils and fastutil. [msrdanov] ??edu.mssm.crover.cli.jar 4 years ago Copy source code from edu.cornell.med.icb.biomarkers package in tissu… [msrdanov] ??edu.mssm.crover.tables.jar 4 years ago Use the tables just built by cruisecontrol and not a temporary one I … [msrdanov] ??fastutil-5.1.5.jar 4 years ago Move learning package to another project. It is used by tisim and bdv… [msrdanov] javastat_1.3.jar 4 years ago JavaStat is used for CoxRegression [msrdanov] -- http://code.google.com/p/guineu/source/browse/trunk/lib/javastat.jar?spec=svn495&r=495 jgap.jar 4 years ago jgap is needed by bdval [msrdanov] -- http://jgap.sourceforge.net/doc/install.html law-1.2.jar 4 years ago law.jar (http://law.dsi.unimi.it/) is required for KendalTau [msrdanov] -- http://law.di.unimi.it/software/download/ mtj.jar 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] -- http://code.google.com/p/matrix-toolkits-java/ pj20071021.jar 4 years ago More jar files required by bdval copied from TissueInfo [msrdanov] -- -- http://www.cs.rit.edu/~ark/pj.shtml ?? tisim-api.jar 4 years ago Move svd package from tissueinfo to bdval where it gets used. [msrdanov] ** icb-utils JSAP-2.1.jar 5 years ago * Very start of command line interface to compound-file (just parsing… [kcdorff] -- http://sourceforge.net/projects/jsap/ ?? colt.jar 4 years ago Copy RandomAdapter.java from the tissueinfo/bdval project. This class… [msrdanov] ??dsiutils-1.0.10.jar 3 years ago Update libraries to match what is generally in use in other projects [msrdanov] ??fastutil-5.1.5.jar 4 years ago Move general purpose statistics classes for MCC and Z-Score from Tiss… [msrdanov] icb-stats.jar 3 years ago Move edu/cornell/med/icb/stat into it's own project [msrdanov] -- https://github.com/CampagneLaboratory/icb-stats ** squil ?? dsiutils-1.0.9.jar ?? fastutil-5.1.5.jar ** icb-stats ??fastutil-5.1.5.jar 3 years ago project for icb-stats package (relocated from icb-utils) [msrdanov] |