[med-svn] [ncbi-vdb] branch master updated (9bc27e7 -> 5b562fb)
Andreas Tille
tille at debian.org
Wed Jul 20 15:30:37 UTC 2016
This is an automated email from the git hooks/post-receive script.
tille pushed a change to branch master
in repository ncbi-vdb.
from 9bc27e7 No need to veryify existence of *.so files any more
new 66ce4e9 d-shlibmove does not accept more than one argument (when using wildcard) - spcifically libncbi-vdb.a is moved before it comes to --movedev
new e868533 Exclude external libs from source tarball, new upstream version
new cd33d97 Imported Upstream version 2.7.0+dfsg
new 91db2e1 Merge tag 'upstream/2.7.0+dfsg'
new d2d4688 Refresh patches
new 1dba16c Once we are starting to remove files it makes sense to remove other cruft
new e5960a8 Add new Build-Depends
new e3d3949 Imported Upstream version 2.7.0+dfsg
new 25e04b0 Merge tag 'upstream/2.7.0+dfsg'
new 5b562fb Use debian packaged libs
The 10 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.
Summary of changes:
.gitignore | 4 +
CHANGES | 18 +
CHANGES.md | 21 +-
build/.gitignore | 7 +-
build/MSVC/2010/.gitignore | 3 -
build/MSVC/2010/bz2.vcxproj | 38 -
build/MSVC/2010/dll-project.props | 46 -
build/MSVC/2010/exe-project.props | 54 -
build/MSVC/2010/kapp-md.vcxproj | 48 -
build/MSVC/2010/kapp.vcxproj | 39 -
build/MSVC/2010/ktst-md.vcxproj | 41 -
build/MSVC/2010/ktst.vcxproj | 31 -
build/MSVC/2010/lib-project.props | 45 -
build/MSVC/2010/load.vcxproj | 35 -
build/MSVC/2010/loader.vcxproj | 37 -
build/MSVC/2010/ncbi-vdb-dll-md.vcxproj | 3425 ----
build/MSVC/2010/ncbi-vdb-dll.filters | 1348 --
build/MSVC/2010/ncbi-vdb-dll.vcxproj | 3422 ----
build/MSVC/2010/ncbi-vdb.sln | 192 -
build/MSVC/2010/ncbi-vdb.vcxproj | 3389 ----
build/MSVC/2010/ncbi-vdb.vcxproj.filters | 1348 --
build/MSVC/2010/ncbi-wvdb-dll-md.vcxproj | 3026 ----
build/MSVC/2010/ncbi-wvdb-dll.vcxproj | 3016 ----
build/MSVC/2010/ncbi-wvdb.vcxproj | 2986 ----
build/MSVC/2010/ncbi-wvdb.vcxproj.filters | 1210 --
build/MSVC/2010/ngs-c++.vcxproj | 34 -
build/MSVC/2010/pileup_dev.vcxproj | 37 -
build/MSVC/2010/test-agrep.vcxproj | 37 -
build/MSVC/2010/test-asm.vcxproj | 34 -
build/MSVC/2010/test-cc.vcxproj | 34 -
build/MSVC/2010/test-dependencies.vcxproj | 38 -
build/MSVC/2010/test-http-dropconn.vcxproj | 41 -
build/MSVC/2010/test-http.vcxproj | 41 -
build/MSVC/2010/test-judy.vcxproj | 33 -
build/MSVC/2010/test-kapp.vcxproj | 35 -
build/MSVC/2010/test-kdb.vcxproj | 38 -
build/MSVC/2010/test-keystore.vcxproj | 34 -
build/MSVC/2010/test-kfc.vcxproj | 39 -
build/MSVC/2010/test-kfg.vcxproj | 38 -
build/MSVC/2010/test-kfs_cache.vcxproj | 38 -
build/MSVC/2010/test-kfs_kfs.vcxproj | 38 -
build/MSVC/2010/test-kfs_md5.vcxproj | 38 -
build/MSVC/2010/test-kfs_ramfile.vcxproj | 38 -
build/MSVC/2010/test-kfs_resolve.vcxproj | 38 -
build/MSVC/2010/test-klib.vcxproj | 34 -
build/MSVC/2010/test-kns.vcxproj | 48 -
build/MSVC/2010/test-kproc.vcxproj | 34 -
build/MSVC/2010/test-krypto_encdec.vcxproj | 39 -
build/MSVC/2010/test-krypto_reenc.vcxproj | 39 -
build/MSVC/2010/test-ktst.vcxproj | 34 -
build/MSVC/2010/test-log.vcxproj | 34 -
build/MSVC/2010/test-ncbi-vdb.sln | 516 -
build/MSVC/2010/test-ngs.vcxproj | 44 -
build/MSVC/2010/test-ngs_csra1-c++.vcxproj | 41 -
build/MSVC/2010/test-ngs_csra1.vcxproj | 40 -
build/MSVC/2010/test-ngs_csra1_pileup.vcxproj | 40 -
.../2010/test-ngs_csra1_readcollection.vcxproj | 40 -
build/MSVC/2010/test-ngs_csra1_refwin.vcxproj | 40 -
build/MSVC/2010/test-ngs_csra1pileup-c++.vcxproj | 38 -
build/MSVC/2010/test-ngs_referencesequence.vcxproj | 40 -
build/MSVC/2010/test-ngs_sra-c++.vcxproj | 37 -
build/MSVC/2010/test-ngs_sra.vcxproj | 40 -
build/MSVC/2010/test-ngs_sradb-c++.vcxproj | 41 -
build/MSVC/2010/test-ngs_sradb.vcxproj | 40 -
build/MSVC/2010/test-out.vcxproj | 34 -
build/MSVC/2010/test-path.vcxproj | 34 -
build/MSVC/2010/test-printf.vcxproj | 34 -
build/MSVC/2010/test-project.props | 24 -
build/MSVC/2010/test-ramfile.vcxproj | 34 -
build/MSVC/2010/test-repository.vcxproj | 34 -
build/MSVC/2010/test-resolve.vcxproj | 34 -
build/MSVC/2010/test-sra-release-version.vcxproj | 34 -
build/MSVC/2010/test-sraxf.vcxproj | 34 -
build/MSVC/2010/test-vdb-dll-md.vcxproj | 50 -
build/MSVC/2010/test-vdb-dll.vcxproj | 34 -
build/MSVC/2010/test-vdb.vcxproj | 34 -
build/MSVC/2010/test-vfs.vcxproj | 38 -
build/MSVC/2010/test-vfsmanager.vcxproj | 36 -
build/MSVC/2010/test-vxf.vcxproj | 35 -
build/MSVC/2010/test-wkdb.vcxproj | 38 -
build/MSVC/2010/test-wvdb-dll-md.vcxproj | 59 -
build/MSVC/2010/test-wvdb-dll.vcxproj | 43 -
build/MSVC/2010/test-wvdb.vcxproj | 43 -
build/MSVC/2010/tui.vcxproj | 53 -
build/MSVC/2010/tui_cpp.vcxproj | 28 -
build/MSVC/2010/vdb-common.props | 91 -
build/MSVC/2010/wb-test-kfg.vcxproj | 34 -
build/MSVC/2010/xfs.vcxproj | 88 -
build/MSVC/2010/zlib.vcxproj | 46 -
build/MSVC/2013/bz2.vcxproj | 35 -
build/MSVC/2013/bz2.vcxproj.user | 3 -
build/MSVC/2013/dll-project.props | 46 -
build/MSVC/2013/exe-project.props | 59 -
build/MSVC/2013/kapp-md.vcxproj | 45 -
build/MSVC/2013/kapp-md.vcxproj.user | 3 -
build/MSVC/2013/kapp.vcxproj | 35 -
build/MSVC/2013/kapp.vcxproj.user | 3 -
build/MSVC/2013/ktst-md.vcxproj | 41 -
build/MSVC/2013/ktst-md.vcxproj.user | 3 -
build/MSVC/2013/ktst.vcxproj | 31 -
build/MSVC/2013/ktst.vcxproj.user | 3 -
build/MSVC/2013/lib-project.props | 49 -
build/MSVC/2013/load.vcxproj | 32 -
build/MSVC/2013/load.vcxproj.user | 3 -
build/MSVC/2013/loader.vcxproj | 34 -
build/MSVC/2013/loader.vcxproj.user | 3 -
build/MSVC/2013/ncbi-vdb-dll-md.vcxproj | 3421 ----
build/MSVC/2013/ncbi-vdb-dll-md.vcxproj.user | 3 -
build/MSVC/2013/ncbi-vdb-dll.filters | 1342 --
build/MSVC/2013/ncbi-vdb-dll.vcxproj | 3416 ----
build/MSVC/2013/ncbi-vdb-dll.vcxproj.user | 3 -
build/MSVC/2013/ncbi-vdb.sln | 192 -
build/MSVC/2013/ncbi-vdb.suo | Bin 28160 -> 0 bytes
build/MSVC/2013/ncbi-vdb.vcxproj | 3384 ----
build/MSVC/2013/ncbi-vdb.vcxproj.filters | 1349 --
build/MSVC/2013/ncbi-vdb.vcxproj.user | 3 -
build/MSVC/2013/ncbi-wvdb-dll-md.vcxproj | 3024 ----
build/MSVC/2013/ncbi-wvdb-dll-md.vcxproj.user | 3 -
build/MSVC/2013/ncbi-wvdb-dll.vcxproj | 3014 ----
build/MSVC/2013/ncbi-wvdb-dll.vcxproj.user | 3 -
build/MSVC/2013/ncbi-wvdb.vcxproj | 2987 ----
build/MSVC/2013/ncbi-wvdb.vcxproj.filters | 1214 --
build/MSVC/2013/ncbi-wvdb.vcxproj.user | 3 -
build/MSVC/2013/ngs-c++.vcxproj | 34 -
build/MSVC/2013/ngs-c++.vcxproj.user | 3 -
build/MSVC/2013/pileup_dev.vcxproj | 37 -
build/MSVC/2013/test-agrep.vcxproj | 36 -
build/MSVC/2013/test-agrep.vcxproj.user | 3 -
build/MSVC/2013/test-asm.vcxproj | 33 -
build/MSVC/2013/test-asm.vcxproj.user | 3 -
build/MSVC/2013/test-cc.vcxproj | 33 -
build/MSVC/2013/test-cc.vcxproj.user | 3 -
build/MSVC/2013/test-dependencies.vcxproj | 38 -
build/MSVC/2013/test-http-dropconn.vcxproj | 42 -
build/MSVC/2013/test-http-dropconn.vcxproj.user | 3 -
build/MSVC/2013/test-http.vcxproj | 42 -
build/MSVC/2013/test-http.vcxproj.user | 3 -
build/MSVC/2013/test-judy.vcxproj | 34 -
build/MSVC/2013/test-judy.vcxproj.user | 3 -
build/MSVC/2013/test-kapp.vcxproj | 35 -
build/MSVC/2013/test-kdb.vcxproj | 36 -
build/MSVC/2013/test-kdb.vcxproj.user | 3 -
build/MSVC/2013/test-keystore.vcxproj | 33 -
build/MSVC/2013/test-keystore.vcxproj.user | 3 -
build/MSVC/2013/test-kfc.vcxproj | 35 -
build/MSVC/2013/test-kfc.vcxproj.user | 3 -
build/MSVC/2013/test-kfg.vcxproj | 36 -
build/MSVC/2013/test-kfg.vcxproj.user | 3 -
build/MSVC/2013/test-kfs_cache.vcxproj | 36 -
build/MSVC/2013/test-kfs_cache.vcxproj.user | 3 -
build/MSVC/2013/test-kfs_kfs.vcxproj | 36 -
build/MSVC/2013/test-kfs_kfs.vcxproj.user | 3 -
build/MSVC/2013/test-kfs_md5.vcxproj | 36 -
build/MSVC/2013/test-kfs_md5.vcxproj.user | 3 -
build/MSVC/2013/test-kfs_ramfile.vcxproj | 36 -
build/MSVC/2013/test-kfs_ramfile.vcxproj.user | 3 -
build/MSVC/2013/test-kfs_resolve.vcxproj | 36 -
build/MSVC/2013/test-kfs_resolve.vcxproj.user | 3 -
build/MSVC/2013/test-klib.vcxproj | 33 -
build/MSVC/2013/test-klib.vcxproj.user | 3 -
build/MSVC/2013/test-kns.vcxproj | 42 -
build/MSVC/2013/test-kns.vcxproj.user | 3 -
build/MSVC/2013/test-kproc.vcxproj | 33 -
build/MSVC/2013/test-kproc.vcxproj.user | 3 -
build/MSVC/2013/test-krypto_encdec.vcxproj | 37 -
build/MSVC/2013/test-krypto_encdec.vcxproj.user | 3 -
build/MSVC/2013/test-krypto_reenc.vcxproj | 37 -
build/MSVC/2013/test-krypto_reenc.vcxproj.user | 3 -
build/MSVC/2013/test-ktst.vcxproj | 33 -
build/MSVC/2013/test-ktst.vcxproj.user | 3 -
build/MSVC/2013/test-log.vcxproj | 33 -
build/MSVC/2013/test-log.vcxproj.user | 3 -
build/MSVC/2013/test-ncbi-vdb.sln | 506 -
build/MSVC/2013/test-ncbi-vdb.suo | Bin 61952 -> 0 bytes
build/MSVC/2013/test-ngs.vcxproj | 41 -
build/MSVC/2013/test-ngs.vcxproj.user | 3 -
build/MSVC/2013/test-ngs_csra1-c++.vcxproj | 39 -
build/MSVC/2013/test-ngs_csra1-c++.vcxproj.user | 3 -
build/MSVC/2013/test-ngs_csra1.vcxproj | 38 -
build/MSVC/2013/test-ngs_csra1.vcxproj.user | 3 -
build/MSVC/2013/test-ngs_csra1_pileup.vcxproj | 38 -
build/MSVC/2013/test-ngs_csra1_pileup.vcxproj.user | 3 -
.../2013/test-ngs_csra1_readcollection.vcxproj | 38 -
.../test-ngs_csra1_readcollection.vcxproj.user | 3 -
build/MSVC/2013/test-ngs_csra1_refwin.vcxproj | 38 -
build/MSVC/2013/test-ngs_csra1_refwin.vcxproj.user | 3 -
build/MSVC/2013/test-ngs_csra1pileup-c++.vcxproj | 37 -
.../2013/test-ngs_csra1pileup-c++.vcxproj.user | 3 -
build/MSVC/2013/test-ngs_referencesequence.vcxproj | 38 -
.../2013/test-ngs_referencesequence.vcxproj.user | 3 -
build/MSVC/2013/test-ngs_sra-c++.vcxproj | 36 -
build/MSVC/2013/test-ngs_sra-c++.vcxproj.user | 3 -
build/MSVC/2013/test-ngs_sra.vcxproj | 38 -
build/MSVC/2013/test-ngs_sra.vcxproj.user | 3 -
build/MSVC/2013/test-ngs_sradb-c++.vcxproj | 39 -
build/MSVC/2013/test-ngs_sradb-c++.vcxproj.user | 3 -
build/MSVC/2013/test-ngs_sradb.vcxproj | 38 -
build/MSVC/2013/test-ngs_sradb.vcxproj.user | 3 -
build/MSVC/2013/test-out.vcxproj | 33 -
build/MSVC/2013/test-out.vcxproj.user | 3 -
build/MSVC/2013/test-path.vcxproj | 33 -
build/MSVC/2013/test-path.vcxproj.user | 3 -
build/MSVC/2013/test-printf.vcxproj | 33 -
build/MSVC/2013/test-printf.vcxproj.user | 3 -
build/MSVC/2013/test-project.props | 24 -
build/MSVC/2013/test-ramfile.vcxproj | 34 -
build/MSVC/2013/test-repository.vcxproj | 33 -
build/MSVC/2013/test-repository.vcxproj.user | 3 -
build/MSVC/2013/test-resolve.vcxproj | 34 -
build/MSVC/2013/test-sra-release-version.vcxproj | 33 -
.../2013/test-sra-release-version.vcxproj.user | 3 -
build/MSVC/2013/test-sraxf.vcxproj | 34 -
build/MSVC/2013/test-vdb-dll-md.vcxproj | 48 -
build/MSVC/2013/test-vdb-dll-md.vcxproj.user | 3 -
build/MSVC/2013/test-vdb-dll.vcxproj | 33 -
build/MSVC/2013/test-vdb-dll.vcxproj.user | 3 -
build/MSVC/2013/test-vdb.vcxproj | 33 -
build/MSVC/2013/test-vdb.vcxproj.user | 3 -
build/MSVC/2013/test-vfs.vcxproj | 34 -
build/MSVC/2013/test-vfs.vcxproj.user | 3 -
build/MSVC/2013/test-vfsmanager.vcxproj | 36 -
build/MSVC/2013/test-vfsmanager.vcxproj.user | 3 -
build/MSVC/2013/test-vxf.vcxproj | 34 -
build/MSVC/2013/test-vxf.vcxproj.user | 3 -
build/MSVC/2013/test-wkdb.vcxproj | 36 -
build/MSVC/2013/test-wkdb.vcxproj.user | 3 -
build/MSVC/2013/test-wvdb-dll-md.vcxproj | 55 -
build/MSVC/2013/test-wvdb-dll-md.vcxproj.user | 3 -
build/MSVC/2013/test-wvdb-dll.vcxproj | 40 -
build/MSVC/2013/test-wvdb-dll.vcxproj.user | 3 -
build/MSVC/2013/test-wvdb.vcxproj | 40 -
build/MSVC/2013/test-wvdb.vcxproj.user | 3 -
build/MSVC/2013/tui.vcxproj | 51 -
build/MSVC/2013/tui.vcxproj.user | 3 -
build/MSVC/2013/tui_cpp.vcxproj | 28 -
build/MSVC/2013/tui_cpp.vcxproj.user | 3 -
build/MSVC/2013/vdb-common.props | 90 -
build/MSVC/2013/wb-test-kfg.vcxproj | 33 -
build/MSVC/2013/wb-test-kfg.vcxproj.user | 3 -
build/MSVC/2013/xfs.vcxproj | 88 -
build/MSVC/2013/zlib.vcxproj | 43 -
build/MSVC/2013/zlib.vcxproj.user | 3 -
build/Makefile.install | 4 -
build/Makefile.linux | 2 +-
build/Makefile.mac | 81 -
build/Makefile.sun | 96 -
build/Makefile.sun.cc | 155 -
build/Makefile.sun.gcc | 138 -
build/Makefile.vc++ | 81 -
test/kfg/config.linux.kfg => build/Makefile.vers | 4 +-
build/Makefile.win | 79 -
build/sun-c++.sh | 100 -
build/sun-cc.sh | 93 -
build/win-cc.sh | 257 -
debian/changelog | 2 +-
debian/control | 4 +-
debian/copyright | 8 +
debian/patches/debug_configure.patch | 2 +-
debian/patches/find_hdf5_serial.patch | 2 +-
debian/patches/find_ngs-sdk.patch | 6 +-
debian/patches/series | 1 +
debian/patches/use_debian_packaged_zlib.patch | 23 +
debian/rules | 4 +-
debian/watch | 3 +-
interfaces/ext/bzlib.h | 282 -
interfaces/ext/hdf5/H5ACpublic.h | 508 -
interfaces/ext/hdf5/H5AbstractDs.h | 91 -
interfaces/ext/hdf5/H5Apublic.h | 120 -
interfaces/ext/hdf5/H5ArrayType.h | 62 -
interfaces/ext/hdf5/H5AtomType.h | 81 -
interfaces/ext/hdf5/H5Attribute.h | 98 -
interfaces/ext/hdf5/H5Classes.h | 51 -
interfaces/ext/hdf5/H5CommonFG.h | 172 -
interfaces/ext/hdf5/H5CompType.h | 114 -
interfaces/ext/hdf5/H5Cpp.h | 58 -
interfaces/ext/hdf5/H5CppDoc.h | 91 -
interfaces/ext/hdf5/H5Cpublic.h | 61 -
interfaces/ext/hdf5/H5DSpublic.h | 79 -
interfaces/ext/hdf5/H5DataSet.h | 132 -
interfaces/ext/hdf5/H5DataSpace.h | 131 -
interfaces/ext/hdf5/H5DataType.h | 139 -
interfaces/ext/hdf5/H5DcreatProp.h | 126 -
interfaces/ext/hdf5/H5Dpublic.h | 154 -
interfaces/ext/hdf5/H5DxferProp.h | 111 -
interfaces/ext/hdf5/H5EnumType.h | 77 -
interfaces/ext/hdf5/H5Epubgen.h | 360 -
interfaces/ext/hdf5/H5Epublic.h | 228 -
interfaces/ext/hdf5/H5Exception.h | 164 -
interfaces/ext/hdf5/H5FDcore.h | 42 -
interfaces/ext/hdf5/H5FDdirect.h | 57 -
interfaces/ext/hdf5/H5FDfamily.h | 44 -
interfaces/ext/hdf5/H5FDlog.h | 69 -
interfaces/ext/hdf5/H5FDmpi.h | 123 -
interfaces/ext/hdf5/H5FDmpio.h | 65 -
interfaces/ext/hdf5/H5FDmpiposix.h | 56 -
interfaces/ext/hdf5/H5FDmulti.h | 52 -
interfaces/ext/hdf5/H5FDpublic.h | 279 -
interfaces/ext/hdf5/H5FDsec2.h | 42 -
interfaces/ext/hdf5/H5FDstdio.h | 41 -
interfaces/ext/hdf5/H5FaccProp.h | 142 -
interfaces/ext/hdf5/H5FcreatProp.h | 79 -
interfaces/ext/hdf5/H5File.h | 148 -
interfaces/ext/hdf5/H5FloatType.h | 74 -
interfaces/ext/hdf5/H5Fpublic.h | 181 -
interfaces/ext/hdf5/H5Gpublic.h | 178 -
interfaces/ext/hdf5/H5Group.h | 76 -
interfaces/ext/hdf5/H5IMpublic.h | 87 -
interfaces/ext/hdf5/H5IdComponent.h | 99 -
interfaces/ext/hdf5/H5Include.h | 30 -
interfaces/ext/hdf5/H5IntType.h | 56 -
interfaces/ext/hdf5/H5Ipublic.h | 104 -
interfaces/ext/hdf5/H5LTpublic.h | 351 -
interfaces/ext/hdf5/H5Library.h | 70 -
interfaces/ext/hdf5/H5Lpublic.h | 202 -
interfaces/ext/hdf5/H5MMpublic.h | 47 -
interfaces/ext/hdf5/H5Object.h | 133 -
interfaces/ext/hdf5/H5Opublic.h | 203 -
interfaces/ext/hdf5/H5PTpublic.h | 127 -
interfaces/ext/hdf5/H5PacketTable.h | 244 -
interfaces/ext/hdf5/H5Ppublic.h | 432 -
interfaces/ext/hdf5/H5PredType.h | 250 -
interfaces/ext/hdf5/H5PropList.h | 122 -
interfaces/ext/hdf5/H5Rpublic.h | 92 -
interfaces/ext/hdf5/H5Spublic.h | 152 -
interfaces/ext/hdf5/H5StrType.h | 68 -
interfaces/ext/hdf5/H5TBpublic.h | 233 -
interfaces/ext/hdf5/H5Tpublic.h | 621 -
interfaces/ext/hdf5/H5VarLenType.h | 52 -
interfaces/ext/hdf5/H5Zpublic.h | 249 -
interfaces/ext/hdf5/H5api_adpt.h | 408 -
interfaces/ext/hdf5/H5f90i.h | 43 -
interfaces/ext/hdf5/H5f90i_gen.h | 48 -
interfaces/ext/hdf5/H5overflow.h | 1939 ---
interfaces/ext/hdf5/H5pubconf.h | 723 -
interfaces/ext/hdf5/H5public.h | 310 -
interfaces/ext/hdf5/H5version.h | 419 -
interfaces/ext/hdf5/h5_dble_interface.mod | 2194 ---
interfaces/ext/hdf5/h5a.mod | 2637 ---
interfaces/ext/hdf5/h5d.mod | 3040 ----
interfaces/ext/hdf5/h5e.mod | 1399 --
interfaces/ext/hdf5/h5f.mod | 1513 --
interfaces/ext/hdf5/h5fortran_types.mod | 73 -
interfaces/ext/hdf5/h5g.mod | 1600 --
interfaces/ext/hdf5/h5global.mod | 1354 --
interfaces/ext/hdf5/h5i.mod | 1421 --
interfaces/ext/hdf5/h5im.mod | 16518 ------------------
interfaces/ext/hdf5/h5l.mod | 1568 --
interfaces/ext/hdf5/h5lib.mod | 56 -
interfaces/ext/hdf5/h5lt.mod | 17284 -------------------
interfaces/ext/hdf5/h5o.mod | 1398 --
interfaces/ext/hdf5/h5p.mod | 2804 ---
interfaces/ext/hdf5/h5r.mod | 1458 --
interfaces/ext/hdf5/h5s.mod | 1658 --
interfaces/ext/hdf5/h5t.mod | 1943 ---
interfaces/ext/hdf5/h5tb.mod | 16846 ------------------
interfaces/ext/hdf5/h5z.mod | 1383 --
interfaces/ext/hdf5/hdf5.h | 55 -
interfaces/ext/hdf5/hdf5.mod | 16361 ------------------
interfaces/ext/hdf5/hdf5_hl.h | 32 -
interfaces/ext/libxml/DOCBparser.h | 96 -
interfaces/ext/libxml/HTMLparser.h | 303 -
interfaces/ext/libxml/HTMLtree.h | 147 -
interfaces/ext/libxml/SAX.h | 173 -
interfaces/ext/libxml/SAX2.h | 176 -
interfaces/ext/libxml/c14n.h | 115 -
interfaces/ext/libxml/catalog.h | 182 -
interfaces/ext/libxml/chvalid.h | 230 -
interfaces/ext/libxml/debugXML.h | 217 -
interfaces/ext/libxml/dict.h | 69 -
interfaces/ext/libxml/encoding.h | 226 -
interfaces/ext/libxml/entities.h | 150 -
interfaces/ext/libxml/globals.h | 491 -
interfaces/ext/libxml/hash.h | 233 -
interfaces/ext/libxml/list.h | 137 -
interfaces/ext/libxml/nanoftp.h | 143 -
interfaces/ext/libxml/nanohttp.h | 81 -
interfaces/ext/libxml/parser.h | 1226 --
interfaces/ext/libxml/parserInternals.h | 611 -
interfaces/ext/libxml/pattern.h | 100 -
interfaces/ext/libxml/relaxng.h | 213 -
interfaces/ext/libxml/schemasInternals.h | 958 -
interfaces/ext/libxml/schematron.h | 142 -
interfaces/ext/libxml/threads.h | 84 -
interfaces/ext/libxml/tree.h | 1252 --
interfaces/ext/libxml/uri.h | 94 -
interfaces/ext/libxml/valid.h | 458 -
interfaces/ext/libxml/xinclude.h | 125 -
interfaces/ext/libxml/xlink.h | 189 -
interfaces/ext/libxml/xmlIO.h | 360 -
interfaces/ext/libxml/xmlautomata.h | 146 -
interfaces/ext/libxml/xmlerror.h | 944 -
interfaces/ext/libxml/xmlexports.h | 157 -
interfaces/ext/libxml/xmlmemory.h | 224 -
interfaces/ext/libxml/xmlmodule.h | 57 -
interfaces/ext/libxml/xmlreader.h | 424 -
interfaces/ext/libxml/xmlregexp.h | 222 -
interfaces/ext/libxml/xmlsave.h | 87 -
interfaces/ext/libxml/xmlschemas.h | 218 -
interfaces/ext/libxml/xmlschemastypes.h | 151 -
interfaces/ext/libxml/xmlstring.h | 140 -
interfaces/ext/libxml/xmlunicode.h | 202 -
interfaces/ext/libxml/xmlversion.h | 458 -
interfaces/ext/libxml/xmlwriter.h | 485 -
interfaces/ext/libxml/xpath.h | 546 -
interfaces/ext/libxml/xpathInternals.h | 630 -
interfaces/ext/libxml/xpointer.h | 114 -
interfaces/ext/magic.h | 89 -
interfaces/ext/regex.h | 557 -
interfaces/ext/ricehdf.h | 86 -
interfaces/ext/zconf.h | 304 -
interfaces/ext/zlib.h | 1613 --
interfaces/kdb/column.h | 41 +
interfaces/kdb/table.h | 6 +
interfaces/kfg/config.h | 1 +
interfaces/kfg/kfg-priv.h | 3 +-
interfaces/kfg/repository.h | 37 +-
interfaces/kfs/arc.h | 3 +-
interfaces/kfs/cacheteefile.h | 2 +
interfaces/kfs/pmem.h | 9 +-
interfaces/kfs/sra.h | 2 +-
interfaces/klib/namelist.h | 46 +
interfaces/kns/http.h | 2 +
interfaces/kproc/timeout.h | 4 +
interfaces/sra/generic-fastq.vschema | 265 +
interfaces/vdb/manager.h | 28 +-
interfaces/vdb/manager.hpp | 15 +
interfaces/vdb/vdb.vschema | 51 +-
interfaces/vfs/manager-priv.h | 19 +
libs/Makefile | 2 +
libs/align/refseq-mgr.c | 64 +-
libs/align/writer-cmn.c | 14 +-
libs/align/writer-reference.c | 266 +-
libs/blast/blast-mgr.c | 2 +-
libs/ext/Makefile | 55 -
libs/ext/bzip2/.gitignore | 4 -
libs/ext/bzip2/LICENSE | 42 -
libs/ext/bzip2/Makefile | 154 -
libs/ext/bzip2/blocksort.c | 1094 --
libs/ext/bzip2/bzip2-1.0.6.diff | 20 -
libs/ext/bzip2/bzip2.c | 2034 ---
libs/ext/bzip2/bzip2recover.c | 514 -
libs/ext/bzip2/bzlib.c | 1572 --
libs/ext/bzip2/bzlib.h | 282 -
libs/ext/bzip2/bzlib_private.h | 509 -
libs/ext/bzip2/compress.c | 674 -
libs/ext/bzip2/crctable.c | 104 -
libs/ext/bzip2/decompress.c | 646 -
libs/ext/bzip2/dlltest.c | 175 -
libs/ext/bzip2/huffman.c | 205 -
libs/ext/bzip2/mk251.c | 31 -
libs/ext/bzip2/randtable.c | 84 -
libs/ext/bzip2/spewG.c | 54 -
libs/ext/bzip2/unzcrash.c | 141 -
libs/ext/magic/.gitignore | 1 -
libs/ext/magic/Makefile | 127 -
libs/ext/magic/apprentice.c | 2381 ---
libs/ext/magic/apptype.c | 168 -
libs/ext/magic/ascmagic.c | 389 -
libs/ext/magic/asprintf.c | 47 -
libs/ext/magic/cdf.c | 1265 --
libs/ext/magic/cdf.h | 305 -
libs/ext/magic/cdf_time.c | 192 -
libs/ext/magic/compress.c | 496 -
libs/ext/magic/config.h | 269 -
libs/ext/magic/elfclass.h | 69 -
libs/ext/magic/encoding.c | 500 -
libs/ext/magic/file.c | 482 -
libs/ext/magic/file.h | 457 -
libs/ext/magic/file_opts.h | 49 -
libs/ext/magic/fsmagic.c | 363 -
libs/ext/magic/funcs.c | 426 -
libs/ext/magic/getopt_long.c | 498 -
libs/ext/magic/is_tar.c | 157 -
libs/ext/magic/libmagic.vers | 1 -
libs/ext/magic/magic.c | 412 -
libs/ext/magic/mygetopt.h | 68 -
libs/ext/magic/names.h | 173 -
libs/ext/magic/patchlevel.h | 355 -
libs/ext/magic/print.c | 240 -
libs/ext/magic/readcdf.c | 284 -
libs/ext/magic/readelf.c | 1192 --
libs/ext/magic/readelf.h | 312 -
libs/ext/magic/softmagic.c | 2012 ---
libs/ext/magic/strlcat.c | 58 -
libs/ext/magic/strlcpy.c | 54 -
libs/ext/magic/tar.h | 73 -
libs/ext/magic/vasprintf.c | 642 -
libs/ext/regex/Makefile | 114 -
libs/ext/regex/libregex.def | 18 -
libs/ext/regex/regcomp.c | 3796 ----
libs/ext/regex/regex.c | 74 -
libs/ext/regex/regex_internal.c | 1717 --
libs/ext/regex/regex_internal.h | 782 -
libs/ext/regex/regexec.c | 4330 -----
libs/ext/szip/.gitignore | 4 -
libs/ext/szip/Makefile | 117 -
libs/ext/zlib/.gitignore | 4 -
libs/ext/zlib/Makefile | 162 -
libs/ext/zlib/adler32.c | 179 -
libs/ext/zlib/compress.c | 80 -
libs/ext/zlib/crc32.c | 425 -
libs/ext/zlib/crc32.h | 441 -
libs/ext/zlib/deflate.c | 1967 ---
libs/ext/zlib/deflate.h | 346 -
libs/ext/zlib/gzclose.c | 25 -
libs/ext/zlib/gzguts.h | 213 -
libs/ext/zlib/gzlib.c | 634 -
libs/ext/zlib/gzread.c | 594 -
libs/ext/zlib/gzwrite.c | 577 -
libs/ext/zlib/infback.c | 640 -
libs/ext/zlib/inffast.c | 340 -
libs/ext/zlib/inffast.h | 11 -
libs/ext/zlib/inffixed.h | 94 -
libs/ext/zlib/inflate.c | 1512 --
libs/ext/zlib/inflate.h | 122 -
libs/ext/zlib/inftrees.c | 306 -
libs/ext/zlib/inftrees.h | 62 -
libs/ext/zlib/sun/stdlib.h | 7 -
libs/ext/zlib/trees.c | 1226 --
libs/ext/zlib/trees.h | 128 -
libs/ext/zlib/uncompr.c | 59 -
libs/ext/zlib/zconf.h | 511 -
libs/ext/zlib/zlib-1.2.8.diff | 10 -
libs/ext/zlib/zlib.h | 1768 --
libs/ext/zlib/zutil.c | 324 -
libs/ext/zlib/zutil.h | 253 -
libs/hdf5/Makefile | 4 +-
libs/hdf5/libkdf5.vers | 1 -
libs/kapp/main.c | 2 +-
libs/kdb/colidx.c | 14 +-
libs/kdb/column.c | 194 +-
libs/kdb/libkdb.vers.h | 2 +-
libs/kdb/libwkdb.vers.h | 27 -
libs/kdb/table.c | 12 +
libs/kdb/wcolidx.c | 18 +-
libs/kdb/wcolumn.c | 179 +-
libs/kdb/wdbmgr.c | 2 +-
libs/kdb/wmeta.c | 2 +-
libs/kdb/wtable.c | 9 +
libs/kfc/unix/sysrsrc.c | 4 +-
libs/kfg/config.c | 37 +-
libs/kfg/default.kfg | 4 +-
libs/kfg/repository.c | 170 +
libs/kfs/arc.c | 14 +
libs/kfs/cacheteefile.c | 5 +
libs/kfs/pmem.c | 1247 +-
libs/klib/btree.c | 10 +-
libs/klib/release-vers.h | 2 +-
libs/klib/report-klib.c | 3 +-
libs/klib/vector_namelist.c | 284 +-
libs/kns/Makefile | 17 +-
libs/kns/http-client.c | 70 +-
libs/kns/http-file.c | 5 +
libs/kns/libkns.vers | 1 -
libs/kns/libkns.vers.h | 1 -
libs/kns/manager.c | 4 +-
libs/kproc/unix/syscond.c | 2 +-
libs/loader/Makefile | 1 -
libs/loader/common-writer.c | 91 +-
libs/ncbi-vdb/Makefile | 9 +-
libs/ncbi-vdb/libncbi-vdb.vers | 2 +-
libs/ncbi-vdb/libncbi-wvdb.vers | 1 -
libs/ngs-c++/Makefile | 2 +-
libs/ngs-c++/NCBI-NGS.cpp | 5 +-
libs/ngs-c++/libncbi-ngs-c++.vers | 1 -
libs/ngs-jni/jni_Manager.c | 4 +-
libs/ngs-jni/libncbi-ngs-jni.vers | 1 -
libs/ngs-py/py_Manager.c | 4 +-
libs/ngs/CSRA1_Alignment.c | 352 +-
libs/ngs/CSRA1_ReadCollection.c | 156 +-
libs/ngs/Makefile | 4 +-
libs/ngs/NGS_Cursor.c | 138 +-
libs/ngs/NGS_FragmentBlob.c | 476 +
libs/ngs/NGS_FragmentBlob.h | 125 +
libs/ngs/NGS_FragmentBlobIterator.c | 185 +
.../NGS_FragmentBlobIterator.h} | 64 +-
libs/ngs/NGS_ReadCollection.c | 22 +-
libs/ngs/NGS_ReadCollection.h | 22 +-
libs/ngs/SRA_DB_ReadCollection.c | 67 +-
libs/ngs/SRA_ReadCollection.c | 52 +-
libs/search/sw-search.c | 5 +
libs/sraxf/Makefile | 1 +
.../tokenize-spot_name-generic-fastq.c} | 64 +-
libs/svdb/Makefile | 4 +-
libs/svdb/libsvdb.vers | 1 -
libs/vdb/dbmgr-cmn.c | 60 +
libs/vdb/libvdb.vers.h | 2 +-
libs/vdb/libwvdb.vers.h | 27 -
libs/vdb/linker-int.c | 2 +
libs/vdb/phys-cmn.c | 64 +-
libs/vdb/prod-cmn.c | 105 +-
libs/vdb/schema-eval.c | 6 +-
libs/vdb/schema-priv.h | 2 +-
libs/vdb/table-cmn.c | 2 +
libs/vdb/table-priv.h | 3 +
libs/vdb/wdbmgr.c | 4 +-
libs/vdb/wtable.c | 2 +
libs/vfs/manager.c | 117 +
libs/vfs/resolver-priv.h | 11 +-
libs/vfs/resolver.c | 165 +-
libs/vxf/deriv.c | 22 +-
libs/vxf/integral.c | 22 +-
libs/vxf/integral_0.c | 22 +-
setup/konfigure.perl | 201 +-
setup/package.prl | 1 -
test/ext/Makefile | 51 -
test/ext/magic/Makefile | 61 -
test/ext/magic/magictest.cpp | 85 -
test/kapp/Makefile | 41 +-
.../kfg/kfg-priv.h => test/kapp/report-kns-agent.c | 34 +-
.../wait_for_file.sh => test/kapp/run-kns-agent.sh | 63 +-
test/kfg/Makefile | 15 +-
test/kfg/flat-sra-kfg.cpp | 415 +
test/kfg/flat-sra-kfg/aux_root/empty.kfg | 1 +
test/kfg/flat-sra-kfg/new/sraFlat.kfg | 1 +
test/kfg/flat-sra-kfg/old/fuse1000.kfg | 1 +
test/kfg/ncbi-home-from-env.cpp | 27 +
test/klib/Makefile | 40 +-
test/klib/test-vnamelist.cpp | 364 +
test/kns/httptest.cpp | 65 +-
test/loader/Makefile | 4 +-
{libs => test}/loader/sequence-writer.c | 0
test/ngs-java/Makefile | 14 +-
test/ngs-java/build.xml | 38 +-
test/ngs-java/ngs_test_CSRA1.java | 27 +
test/ngs-java/ngs_test_lib_load.java | 246 +
test/ngs-python/build.xml | 26 +-
test/ngs/Makefile | 61 +-
test/ngs/data/.gitignore | 1 +
test/ngs/ngs_c_fixture.hpp | 23 +-
test/ngs/ngstest.cpp | 280 +-
test/ngs/ngstest_csra1.cpp | 379 +-
test/ngs/ngstest_csra1_refwin.cpp | 10 +-
test/ngs/ngstest_fragmentblob.cpp | 597 +
test/ngs/ngstest_makedb.cpp | 196 +
test/ngs/ngstest_sra.cpp | 436 +-
test/ngs/ngstest_sradb.cpp | 312 +-
test/search/test-agrep.cpp | 8 +-
test/vdb/Makefile | 55 +-
test/vdb/db/blob_val_inv_chsum.sra | Bin 0 -> 196213 bytes
test/vdb/test-VDB-3060.cpp | 380 +
test/vdb/test-blob-val.cpp | 185 +
test/vdb/test-sparse-col.cpp | 0
test/vdb/test-vdb.cpp | 285 +-
test/vdb/test-wvdb.cpp | 169 +-
test/vfs/Makefile | 19 +-
test/vfs/caching-kfg/incomplete.kfg | 4 +
.../vfs/repo/wgs/WGS/YY/ZZ/YYZZ10 | 0
.../public/refseq => repo/wgs/WGS/YY/ZZ}/YYZZ99 | 0
.../vfs/repo/wgs2/WGS/YY/ZZ/YYZZ20 | 0
.../public/refseq => repo/wgs2/WGS/YY/ZZ}/YYZZ99 | 0
test/vfs/resolvertest.cpp | 138 +-
test/vfs/test-caching.cpp | 615 +
653 files changed, 8668 insertions(+), 229338 deletions(-)
delete mode 100755 build/MSVC/2010/.gitignore
delete mode 100644 build/MSVC/2010/bz2.vcxproj
delete mode 100644 build/MSVC/2010/dll-project.props
delete mode 100644 build/MSVC/2010/exe-project.props
delete mode 100644 build/MSVC/2010/kapp-md.vcxproj
delete mode 100644 build/MSVC/2010/kapp.vcxproj
delete mode 100644 build/MSVC/2010/ktst-md.vcxproj
delete mode 100644 build/MSVC/2010/ktst.vcxproj
delete mode 100644 build/MSVC/2010/lib-project.props
delete mode 100644 build/MSVC/2010/load.vcxproj
delete mode 100644 build/MSVC/2010/loader.vcxproj
delete mode 100644 build/MSVC/2010/ncbi-vdb-dll-md.vcxproj
delete mode 100644 build/MSVC/2010/ncbi-vdb-dll.filters
delete mode 100644 build/MSVC/2010/ncbi-vdb-dll.vcxproj
delete mode 100644 build/MSVC/2010/ncbi-vdb.sln
delete mode 100644 build/MSVC/2010/ncbi-vdb.vcxproj
delete mode 100644 build/MSVC/2010/ncbi-vdb.vcxproj.filters
delete mode 100644 build/MSVC/2010/ncbi-wvdb-dll-md.vcxproj
delete mode 100644 build/MSVC/2010/ncbi-wvdb-dll.vcxproj
delete mode 100644 build/MSVC/2010/ncbi-wvdb.vcxproj
delete mode 100644 build/MSVC/2010/ncbi-wvdb.vcxproj.filters
delete mode 100644 build/MSVC/2010/ngs-c++.vcxproj
delete mode 100644 build/MSVC/2010/pileup_dev.vcxproj
delete mode 100644 build/MSVC/2010/test-agrep.vcxproj
delete mode 100644 build/MSVC/2010/test-asm.vcxproj
delete mode 100644 build/MSVC/2010/test-cc.vcxproj
delete mode 100644 build/MSVC/2010/test-dependencies.vcxproj
delete mode 100644 build/MSVC/2010/test-http-dropconn.vcxproj
delete mode 100644 build/MSVC/2010/test-http.vcxproj
delete mode 100644 build/MSVC/2010/test-judy.vcxproj
delete mode 100644 build/MSVC/2010/test-kapp.vcxproj
delete mode 100644 build/MSVC/2010/test-kdb.vcxproj
delete mode 100644 build/MSVC/2010/test-keystore.vcxproj
delete mode 100644 build/MSVC/2010/test-kfc.vcxproj
delete mode 100644 build/MSVC/2010/test-kfg.vcxproj
delete mode 100644 build/MSVC/2010/test-kfs_cache.vcxproj
delete mode 100644 build/MSVC/2010/test-kfs_kfs.vcxproj
delete mode 100644 build/MSVC/2010/test-kfs_md5.vcxproj
delete mode 100644 build/MSVC/2010/test-kfs_ramfile.vcxproj
delete mode 100644 build/MSVC/2010/test-kfs_resolve.vcxproj
delete mode 100644 build/MSVC/2010/test-klib.vcxproj
delete mode 100644 build/MSVC/2010/test-kns.vcxproj
delete mode 100644 build/MSVC/2010/test-kproc.vcxproj
delete mode 100644 build/MSVC/2010/test-krypto_encdec.vcxproj
delete mode 100644 build/MSVC/2010/test-krypto_reenc.vcxproj
delete mode 100644 build/MSVC/2010/test-ktst.vcxproj
delete mode 100644 build/MSVC/2010/test-log.vcxproj
delete mode 100644 build/MSVC/2010/test-ncbi-vdb.sln
delete mode 100644 build/MSVC/2010/test-ngs.vcxproj
delete mode 100644 build/MSVC/2010/test-ngs_csra1-c++.vcxproj
delete mode 100644 build/MSVC/2010/test-ngs_csra1.vcxproj
delete mode 100644 build/MSVC/2010/test-ngs_csra1_pileup.vcxproj
delete mode 100644 build/MSVC/2010/test-ngs_csra1_readcollection.vcxproj
delete mode 100644 build/MSVC/2010/test-ngs_csra1_refwin.vcxproj
delete mode 100644 build/MSVC/2010/test-ngs_csra1pileup-c++.vcxproj
delete mode 100644 build/MSVC/2010/test-ngs_referencesequence.vcxproj
delete mode 100644 build/MSVC/2010/test-ngs_sra-c++.vcxproj
delete mode 100644 build/MSVC/2010/test-ngs_sra.vcxproj
delete mode 100644 build/MSVC/2010/test-ngs_sradb-c++.vcxproj
delete mode 100644 build/MSVC/2010/test-ngs_sradb.vcxproj
delete mode 100644 build/MSVC/2010/test-out.vcxproj
delete mode 100644 build/MSVC/2010/test-path.vcxproj
delete mode 100644 build/MSVC/2010/test-printf.vcxproj
delete mode 100644 build/MSVC/2010/test-project.props
delete mode 100644 build/MSVC/2010/test-ramfile.vcxproj
delete mode 100644 build/MSVC/2010/test-repository.vcxproj
delete mode 100644 build/MSVC/2010/test-resolve.vcxproj
delete mode 100644 build/MSVC/2010/test-sra-release-version.vcxproj
delete mode 100644 build/MSVC/2010/test-sraxf.vcxproj
delete mode 100644 build/MSVC/2010/test-vdb-dll-md.vcxproj
delete mode 100644 build/MSVC/2010/test-vdb-dll.vcxproj
delete mode 100644 build/MSVC/2010/test-vdb.vcxproj
delete mode 100644 build/MSVC/2010/test-vfs.vcxproj
delete mode 100644 build/MSVC/2010/test-vfsmanager.vcxproj
delete mode 100644 build/MSVC/2010/test-vxf.vcxproj
delete mode 100644 build/MSVC/2010/test-wkdb.vcxproj
delete mode 100644 build/MSVC/2010/test-wvdb-dll-md.vcxproj
delete mode 100644 build/MSVC/2010/test-wvdb-dll.vcxproj
delete mode 100644 build/MSVC/2010/test-wvdb.vcxproj
delete mode 100644 build/MSVC/2010/tui.vcxproj
delete mode 100644 build/MSVC/2010/tui_cpp.vcxproj
delete mode 100644 build/MSVC/2010/vdb-common.props
delete mode 100644 build/MSVC/2010/wb-test-kfg.vcxproj
delete mode 100644 build/MSVC/2010/xfs.vcxproj
delete mode 100644 build/MSVC/2010/zlib.vcxproj
delete mode 100644 build/MSVC/2013/bz2.vcxproj
delete mode 100644 build/MSVC/2013/bz2.vcxproj.user
delete mode 100644 build/MSVC/2013/dll-project.props
delete mode 100644 build/MSVC/2013/exe-project.props
delete mode 100644 build/MSVC/2013/kapp-md.vcxproj
delete mode 100644 build/MSVC/2013/kapp-md.vcxproj.user
delete mode 100644 build/MSVC/2013/kapp.vcxproj
delete mode 100644 build/MSVC/2013/kapp.vcxproj.user
delete mode 100644 build/MSVC/2013/ktst-md.vcxproj
delete mode 100644 build/MSVC/2013/ktst-md.vcxproj.user
delete mode 100644 build/MSVC/2013/ktst.vcxproj
delete mode 100644 build/MSVC/2013/ktst.vcxproj.user
delete mode 100644 build/MSVC/2013/lib-project.props
delete mode 100644 build/MSVC/2013/load.vcxproj
delete mode 100644 build/MSVC/2013/load.vcxproj.user
delete mode 100644 build/MSVC/2013/loader.vcxproj
delete mode 100644 build/MSVC/2013/loader.vcxproj.user
delete mode 100644 build/MSVC/2013/ncbi-vdb-dll-md.vcxproj
delete mode 100644 build/MSVC/2013/ncbi-vdb-dll-md.vcxproj.user
delete mode 100644 build/MSVC/2013/ncbi-vdb-dll.filters
delete mode 100644 build/MSVC/2013/ncbi-vdb-dll.vcxproj
delete mode 100644 build/MSVC/2013/ncbi-vdb-dll.vcxproj.user
delete mode 100644 build/MSVC/2013/ncbi-vdb.sln
delete mode 100644 build/MSVC/2013/ncbi-vdb.suo
delete mode 100644 build/MSVC/2013/ncbi-vdb.vcxproj
delete mode 100644 build/MSVC/2013/ncbi-vdb.vcxproj.filters
delete mode 100644 build/MSVC/2013/ncbi-vdb.vcxproj.user
delete mode 100644 build/MSVC/2013/ncbi-wvdb-dll-md.vcxproj
delete mode 100644 build/MSVC/2013/ncbi-wvdb-dll-md.vcxproj.user
delete mode 100644 build/MSVC/2013/ncbi-wvdb-dll.vcxproj
delete mode 100644 build/MSVC/2013/ncbi-wvdb-dll.vcxproj.user
delete mode 100644 build/MSVC/2013/ncbi-wvdb.vcxproj
delete mode 100644 build/MSVC/2013/ncbi-wvdb.vcxproj.filters
delete mode 100644 build/MSVC/2013/ncbi-wvdb.vcxproj.user
delete mode 100644 build/MSVC/2013/ngs-c++.vcxproj
delete mode 100644 build/MSVC/2013/ngs-c++.vcxproj.user
delete mode 100644 build/MSVC/2013/pileup_dev.vcxproj
delete mode 100644 build/MSVC/2013/test-agrep.vcxproj
delete mode 100644 build/MSVC/2013/test-agrep.vcxproj.user
delete mode 100644 build/MSVC/2013/test-asm.vcxproj
delete mode 100644 build/MSVC/2013/test-asm.vcxproj.user
delete mode 100644 build/MSVC/2013/test-cc.vcxproj
delete mode 100644 build/MSVC/2013/test-cc.vcxproj.user
delete mode 100644 build/MSVC/2013/test-dependencies.vcxproj
delete mode 100644 build/MSVC/2013/test-http-dropconn.vcxproj
delete mode 100644 build/MSVC/2013/test-http-dropconn.vcxproj.user
delete mode 100644 build/MSVC/2013/test-http.vcxproj
delete mode 100644 build/MSVC/2013/test-http.vcxproj.user
delete mode 100644 build/MSVC/2013/test-judy.vcxproj
delete mode 100644 build/MSVC/2013/test-judy.vcxproj.user
delete mode 100644 build/MSVC/2013/test-kapp.vcxproj
delete mode 100644 build/MSVC/2013/test-kdb.vcxproj
delete mode 100644 build/MSVC/2013/test-kdb.vcxproj.user
delete mode 100644 build/MSVC/2013/test-keystore.vcxproj
delete mode 100644 build/MSVC/2013/test-keystore.vcxproj.user
delete mode 100644 build/MSVC/2013/test-kfc.vcxproj
delete mode 100644 build/MSVC/2013/test-kfc.vcxproj.user
delete mode 100644 build/MSVC/2013/test-kfg.vcxproj
delete mode 100644 build/MSVC/2013/test-kfg.vcxproj.user
delete mode 100644 build/MSVC/2013/test-kfs_cache.vcxproj
delete mode 100644 build/MSVC/2013/test-kfs_cache.vcxproj.user
delete mode 100644 build/MSVC/2013/test-kfs_kfs.vcxproj
delete mode 100644 build/MSVC/2013/test-kfs_kfs.vcxproj.user
delete mode 100644 build/MSVC/2013/test-kfs_md5.vcxproj
delete mode 100644 build/MSVC/2013/test-kfs_md5.vcxproj.user
delete mode 100644 build/MSVC/2013/test-kfs_ramfile.vcxproj
delete mode 100644 build/MSVC/2013/test-kfs_ramfile.vcxproj.user
delete mode 100644 build/MSVC/2013/test-kfs_resolve.vcxproj
delete mode 100644 build/MSVC/2013/test-kfs_resolve.vcxproj.user
delete mode 100644 build/MSVC/2013/test-klib.vcxproj
delete mode 100644 build/MSVC/2013/test-klib.vcxproj.user
delete mode 100644 build/MSVC/2013/test-kns.vcxproj
delete mode 100644 build/MSVC/2013/test-kns.vcxproj.user
delete mode 100644 build/MSVC/2013/test-kproc.vcxproj
delete mode 100644 build/MSVC/2013/test-kproc.vcxproj.user
delete mode 100644 build/MSVC/2013/test-krypto_encdec.vcxproj
delete mode 100644 build/MSVC/2013/test-krypto_encdec.vcxproj.user
delete mode 100644 build/MSVC/2013/test-krypto_reenc.vcxproj
delete mode 100644 build/MSVC/2013/test-krypto_reenc.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ktst.vcxproj
delete mode 100644 build/MSVC/2013/test-ktst.vcxproj.user
delete mode 100644 build/MSVC/2013/test-log.vcxproj
delete mode 100644 build/MSVC/2013/test-log.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ncbi-vdb.sln
delete mode 100644 build/MSVC/2013/test-ncbi-vdb.suo
delete mode 100644 build/MSVC/2013/test-ngs.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ngs_csra1-c++.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs_csra1-c++.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ngs_csra1.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs_csra1.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ngs_csra1_pileup.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs_csra1_pileup.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ngs_csra1_readcollection.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs_csra1_readcollection.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ngs_csra1_refwin.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs_csra1_refwin.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ngs_csra1pileup-c++.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs_csra1pileup-c++.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ngs_referencesequence.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs_referencesequence.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ngs_sra-c++.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs_sra-c++.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ngs_sra.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs_sra.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ngs_sradb-c++.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs_sradb-c++.vcxproj.user
delete mode 100644 build/MSVC/2013/test-ngs_sradb.vcxproj
delete mode 100644 build/MSVC/2013/test-ngs_sradb.vcxproj.user
delete mode 100644 build/MSVC/2013/test-out.vcxproj
delete mode 100644 build/MSVC/2013/test-out.vcxproj.user
delete mode 100644 build/MSVC/2013/test-path.vcxproj
delete mode 100644 build/MSVC/2013/test-path.vcxproj.user
delete mode 100644 build/MSVC/2013/test-printf.vcxproj
delete mode 100644 build/MSVC/2013/test-printf.vcxproj.user
delete mode 100644 build/MSVC/2013/test-project.props
delete mode 100644 build/MSVC/2013/test-ramfile.vcxproj
delete mode 100644 build/MSVC/2013/test-repository.vcxproj
delete mode 100644 build/MSVC/2013/test-repository.vcxproj.user
delete mode 100644 build/MSVC/2013/test-resolve.vcxproj
delete mode 100644 build/MSVC/2013/test-sra-release-version.vcxproj
delete mode 100644 build/MSVC/2013/test-sra-release-version.vcxproj.user
delete mode 100644 build/MSVC/2013/test-sraxf.vcxproj
delete mode 100644 build/MSVC/2013/test-vdb-dll-md.vcxproj
delete mode 100644 build/MSVC/2013/test-vdb-dll-md.vcxproj.user
delete mode 100644 build/MSVC/2013/test-vdb-dll.vcxproj
delete mode 100644 build/MSVC/2013/test-vdb-dll.vcxproj.user
delete mode 100644 build/MSVC/2013/test-vdb.vcxproj
delete mode 100644 build/MSVC/2013/test-vdb.vcxproj.user
delete mode 100644 build/MSVC/2013/test-vfs.vcxproj
delete mode 100644 build/MSVC/2013/test-vfs.vcxproj.user
delete mode 100644 build/MSVC/2013/test-vfsmanager.vcxproj
delete mode 100644 build/MSVC/2013/test-vfsmanager.vcxproj.user
delete mode 100644 build/MSVC/2013/test-vxf.vcxproj
delete mode 100644 build/MSVC/2013/test-vxf.vcxproj.user
delete mode 100644 build/MSVC/2013/test-wkdb.vcxproj
delete mode 100644 build/MSVC/2013/test-wkdb.vcxproj.user
delete mode 100644 build/MSVC/2013/test-wvdb-dll-md.vcxproj
delete mode 100644 build/MSVC/2013/test-wvdb-dll-md.vcxproj.user
delete mode 100644 build/MSVC/2013/test-wvdb-dll.vcxproj
delete mode 100644 build/MSVC/2013/test-wvdb-dll.vcxproj.user
delete mode 100644 build/MSVC/2013/test-wvdb.vcxproj
delete mode 100644 build/MSVC/2013/test-wvdb.vcxproj.user
delete mode 100644 build/MSVC/2013/tui.vcxproj
delete mode 100644 build/MSVC/2013/tui.vcxproj.user
delete mode 100644 build/MSVC/2013/tui_cpp.vcxproj
delete mode 100644 build/MSVC/2013/tui_cpp.vcxproj.user
delete mode 100644 build/MSVC/2013/vdb-common.props
delete mode 100644 build/MSVC/2013/wb-test-kfg.vcxproj
delete mode 100644 build/MSVC/2013/wb-test-kfg.vcxproj.user
delete mode 100644 build/MSVC/2013/xfs.vcxproj
delete mode 100644 build/MSVC/2013/zlib.vcxproj
delete mode 100644 build/MSVC/2013/zlib.vcxproj.user
delete mode 100644 build/Makefile.mac
delete mode 100644 build/Makefile.sun
delete mode 100644 build/Makefile.sun.cc
delete mode 100644 build/Makefile.sun.gcc
delete mode 100644 build/Makefile.vc++
copy test/kfg/config.linux.kfg => build/Makefile.vers (95%)
delete mode 100644 build/Makefile.win
delete mode 100755 build/sun-c++.sh
delete mode 100755 build/sun-cc.sh
delete mode 100755 build/win-cc.sh
create mode 100644 debian/patches/use_debian_packaged_zlib.patch
delete mode 100644 interfaces/ext/bzlib.h
delete mode 100644 interfaces/ext/hdf5/H5ACpublic.h
delete mode 100644 interfaces/ext/hdf5/H5AbstractDs.h
delete mode 100644 interfaces/ext/hdf5/H5Apublic.h
delete mode 100644 interfaces/ext/hdf5/H5ArrayType.h
delete mode 100644 interfaces/ext/hdf5/H5AtomType.h
delete mode 100644 interfaces/ext/hdf5/H5Attribute.h
delete mode 100644 interfaces/ext/hdf5/H5Classes.h
delete mode 100644 interfaces/ext/hdf5/H5CommonFG.h
delete mode 100644 interfaces/ext/hdf5/H5CompType.h
delete mode 100644 interfaces/ext/hdf5/H5Cpp.h
delete mode 100644 interfaces/ext/hdf5/H5CppDoc.h
delete mode 100644 interfaces/ext/hdf5/H5Cpublic.h
delete mode 100644 interfaces/ext/hdf5/H5DSpublic.h
delete mode 100644 interfaces/ext/hdf5/H5DataSet.h
delete mode 100644 interfaces/ext/hdf5/H5DataSpace.h
delete mode 100644 interfaces/ext/hdf5/H5DataType.h
delete mode 100644 interfaces/ext/hdf5/H5DcreatProp.h
delete mode 100644 interfaces/ext/hdf5/H5Dpublic.h
delete mode 100644 interfaces/ext/hdf5/H5DxferProp.h
delete mode 100644 interfaces/ext/hdf5/H5EnumType.h
delete mode 100644 interfaces/ext/hdf5/H5Epubgen.h
delete mode 100644 interfaces/ext/hdf5/H5Epublic.h
delete mode 100644 interfaces/ext/hdf5/H5Exception.h
delete mode 100644 interfaces/ext/hdf5/H5FDcore.h
delete mode 100644 interfaces/ext/hdf5/H5FDdirect.h
delete mode 100644 interfaces/ext/hdf5/H5FDfamily.h
delete mode 100644 interfaces/ext/hdf5/H5FDlog.h
delete mode 100644 interfaces/ext/hdf5/H5FDmpi.h
delete mode 100644 interfaces/ext/hdf5/H5FDmpio.h
delete mode 100644 interfaces/ext/hdf5/H5FDmpiposix.h
delete mode 100644 interfaces/ext/hdf5/H5FDmulti.h
delete mode 100644 interfaces/ext/hdf5/H5FDpublic.h
delete mode 100644 interfaces/ext/hdf5/H5FDsec2.h
delete mode 100644 interfaces/ext/hdf5/H5FDstdio.h
delete mode 100644 interfaces/ext/hdf5/H5FaccProp.h
delete mode 100644 interfaces/ext/hdf5/H5FcreatProp.h
delete mode 100644 interfaces/ext/hdf5/H5File.h
delete mode 100644 interfaces/ext/hdf5/H5FloatType.h
delete mode 100644 interfaces/ext/hdf5/H5Fpublic.h
delete mode 100644 interfaces/ext/hdf5/H5Gpublic.h
delete mode 100644 interfaces/ext/hdf5/H5Group.h
delete mode 100644 interfaces/ext/hdf5/H5IMpublic.h
delete mode 100644 interfaces/ext/hdf5/H5IdComponent.h
delete mode 100644 interfaces/ext/hdf5/H5Include.h
delete mode 100644 interfaces/ext/hdf5/H5IntType.h
delete mode 100644 interfaces/ext/hdf5/H5Ipublic.h
delete mode 100644 interfaces/ext/hdf5/H5LTpublic.h
delete mode 100644 interfaces/ext/hdf5/H5Library.h
delete mode 100644 interfaces/ext/hdf5/H5Lpublic.h
delete mode 100644 interfaces/ext/hdf5/H5MMpublic.h
delete mode 100644 interfaces/ext/hdf5/H5Object.h
delete mode 100644 interfaces/ext/hdf5/H5Opublic.h
delete mode 100644 interfaces/ext/hdf5/H5PTpublic.h
delete mode 100644 interfaces/ext/hdf5/H5PacketTable.h
delete mode 100644 interfaces/ext/hdf5/H5Ppublic.h
delete mode 100644 interfaces/ext/hdf5/H5PredType.h
delete mode 100644 interfaces/ext/hdf5/H5PropList.h
delete mode 100644 interfaces/ext/hdf5/H5Rpublic.h
delete mode 100644 interfaces/ext/hdf5/H5Spublic.h
delete mode 100644 interfaces/ext/hdf5/H5StrType.h
delete mode 100644 interfaces/ext/hdf5/H5TBpublic.h
delete mode 100644 interfaces/ext/hdf5/H5Tpublic.h
delete mode 100644 interfaces/ext/hdf5/H5VarLenType.h
delete mode 100644 interfaces/ext/hdf5/H5Zpublic.h
delete mode 100644 interfaces/ext/hdf5/H5api_adpt.h
delete mode 100644 interfaces/ext/hdf5/H5f90i.h
delete mode 100644 interfaces/ext/hdf5/H5f90i_gen.h
delete mode 100644 interfaces/ext/hdf5/H5overflow.h
delete mode 100644 interfaces/ext/hdf5/H5pubconf.h
delete mode 100644 interfaces/ext/hdf5/H5public.h
delete mode 100644 interfaces/ext/hdf5/H5version.h
delete mode 100644 interfaces/ext/hdf5/h5_dble_interface.mod
delete mode 100644 interfaces/ext/hdf5/h5a.mod
delete mode 100644 interfaces/ext/hdf5/h5d.mod
delete mode 100644 interfaces/ext/hdf5/h5e.mod
delete mode 100644 interfaces/ext/hdf5/h5f.mod
delete mode 100644 interfaces/ext/hdf5/h5fortran_types.mod
delete mode 100644 interfaces/ext/hdf5/h5g.mod
delete mode 100644 interfaces/ext/hdf5/h5global.mod
delete mode 100644 interfaces/ext/hdf5/h5i.mod
delete mode 100644 interfaces/ext/hdf5/h5im.mod
delete mode 100644 interfaces/ext/hdf5/h5l.mod
delete mode 100644 interfaces/ext/hdf5/h5lib.mod
delete mode 100644 interfaces/ext/hdf5/h5lt.mod
delete mode 100644 interfaces/ext/hdf5/h5o.mod
delete mode 100644 interfaces/ext/hdf5/h5p.mod
delete mode 100644 interfaces/ext/hdf5/h5r.mod
delete mode 100644 interfaces/ext/hdf5/h5s.mod
delete mode 100644 interfaces/ext/hdf5/h5t.mod
delete mode 100644 interfaces/ext/hdf5/h5tb.mod
delete mode 100644 interfaces/ext/hdf5/h5z.mod
delete mode 100644 interfaces/ext/hdf5/hdf5.h
delete mode 100644 interfaces/ext/hdf5/hdf5.mod
delete mode 100644 interfaces/ext/hdf5/hdf5_hl.h
delete mode 100644 interfaces/ext/libxml/DOCBparser.h
delete mode 100644 interfaces/ext/libxml/HTMLparser.h
delete mode 100644 interfaces/ext/libxml/HTMLtree.h
delete mode 100644 interfaces/ext/libxml/SAX.h
delete mode 100644 interfaces/ext/libxml/SAX2.h
delete mode 100644 interfaces/ext/libxml/c14n.h
delete mode 100644 interfaces/ext/libxml/catalog.h
delete mode 100644 interfaces/ext/libxml/chvalid.h
delete mode 100644 interfaces/ext/libxml/debugXML.h
delete mode 100644 interfaces/ext/libxml/dict.h
delete mode 100644 interfaces/ext/libxml/encoding.h
delete mode 100644 interfaces/ext/libxml/entities.h
delete mode 100644 interfaces/ext/libxml/globals.h
delete mode 100644 interfaces/ext/libxml/hash.h
delete mode 100644 interfaces/ext/libxml/list.h
delete mode 100644 interfaces/ext/libxml/nanoftp.h
delete mode 100644 interfaces/ext/libxml/nanohttp.h
delete mode 100644 interfaces/ext/libxml/parser.h
delete mode 100644 interfaces/ext/libxml/parserInternals.h
delete mode 100644 interfaces/ext/libxml/pattern.h
delete mode 100644 interfaces/ext/libxml/relaxng.h
delete mode 100644 interfaces/ext/libxml/schemasInternals.h
delete mode 100644 interfaces/ext/libxml/schematron.h
delete mode 100644 interfaces/ext/libxml/threads.h
delete mode 100644 interfaces/ext/libxml/tree.h
delete mode 100644 interfaces/ext/libxml/uri.h
delete mode 100644 interfaces/ext/libxml/valid.h
delete mode 100644 interfaces/ext/libxml/xinclude.h
delete mode 100644 interfaces/ext/libxml/xlink.h
delete mode 100644 interfaces/ext/libxml/xmlIO.h
delete mode 100644 interfaces/ext/libxml/xmlautomata.h
delete mode 100644 interfaces/ext/libxml/xmlerror.h
delete mode 100644 interfaces/ext/libxml/xmlexports.h
delete mode 100644 interfaces/ext/libxml/xmlmemory.h
delete mode 100644 interfaces/ext/libxml/xmlmodule.h
delete mode 100644 interfaces/ext/libxml/xmlreader.h
delete mode 100644 interfaces/ext/libxml/xmlregexp.h
delete mode 100644 interfaces/ext/libxml/xmlsave.h
delete mode 100644 interfaces/ext/libxml/xmlschemas.h
delete mode 100644 interfaces/ext/libxml/xmlschemastypes.h
delete mode 100644 interfaces/ext/libxml/xmlstring.h
delete mode 100644 interfaces/ext/libxml/xmlunicode.h
delete mode 100644 interfaces/ext/libxml/xmlversion.h
delete mode 100644 interfaces/ext/libxml/xmlwriter.h
delete mode 100644 interfaces/ext/libxml/xpath.h
delete mode 100644 interfaces/ext/libxml/xpathInternals.h
delete mode 100644 interfaces/ext/libxml/xpointer.h
delete mode 100644 interfaces/ext/magic.h
delete mode 100644 interfaces/ext/regex.h
delete mode 100644 interfaces/ext/ricehdf.h
delete mode 100644 interfaces/ext/zconf.h
delete mode 100644 interfaces/ext/zlib.h
create mode 100644 interfaces/sra/generic-fastq.vschema
delete mode 100644 libs/ext/Makefile
delete mode 100644 libs/ext/bzip2/.gitignore
delete mode 100644 libs/ext/bzip2/LICENSE
delete mode 100644 libs/ext/bzip2/Makefile
delete mode 100644 libs/ext/bzip2/blocksort.c
delete mode 100644 libs/ext/bzip2/bzip2-1.0.6.diff
delete mode 100644 libs/ext/bzip2/bzip2.c
delete mode 100644 libs/ext/bzip2/bzip2recover.c
delete mode 100644 libs/ext/bzip2/bzlib.c
delete mode 100644 libs/ext/bzip2/bzlib.h
delete mode 100644 libs/ext/bzip2/bzlib_private.h
delete mode 100644 libs/ext/bzip2/compress.c
delete mode 100644 libs/ext/bzip2/crctable.c
delete mode 100644 libs/ext/bzip2/decompress.c
delete mode 100644 libs/ext/bzip2/dlltest.c
delete mode 100644 libs/ext/bzip2/huffman.c
delete mode 100644 libs/ext/bzip2/mk251.c
delete mode 100644 libs/ext/bzip2/randtable.c
delete mode 100644 libs/ext/bzip2/spewG.c
delete mode 100644 libs/ext/bzip2/unzcrash.c
delete mode 100644 libs/ext/magic/.gitignore
delete mode 100644 libs/ext/magic/Makefile
delete mode 100644 libs/ext/magic/apprentice.c
delete mode 100644 libs/ext/magic/apptype.c
delete mode 100644 libs/ext/magic/ascmagic.c
delete mode 100644 libs/ext/magic/asprintf.c
delete mode 100644 libs/ext/magic/cdf.c
delete mode 100644 libs/ext/magic/cdf.h
delete mode 100644 libs/ext/magic/cdf_time.c
delete mode 100644 libs/ext/magic/compress.c
delete mode 100644 libs/ext/magic/config.h
delete mode 100644 libs/ext/magic/elfclass.h
delete mode 100644 libs/ext/magic/encoding.c
delete mode 100644 libs/ext/magic/file.c
delete mode 100644 libs/ext/magic/file.h
delete mode 100644 libs/ext/magic/file_opts.h
delete mode 100644 libs/ext/magic/fsmagic.c
delete mode 100644 libs/ext/magic/funcs.c
delete mode 100644 libs/ext/magic/getopt_long.c
delete mode 100644 libs/ext/magic/is_tar.c
delete mode 100644 libs/ext/magic/libmagic.vers
delete mode 100644 libs/ext/magic/magic.c
delete mode 100644 libs/ext/magic/mygetopt.h
delete mode 100644 libs/ext/magic/names.h
delete mode 100644 libs/ext/magic/patchlevel.h
delete mode 100644 libs/ext/magic/print.c
delete mode 100644 libs/ext/magic/readcdf.c
delete mode 100644 libs/ext/magic/readelf.c
delete mode 100644 libs/ext/magic/readelf.h
delete mode 100644 libs/ext/magic/softmagic.c
delete mode 100644 libs/ext/magic/strlcat.c
delete mode 100644 libs/ext/magic/strlcpy.c
delete mode 100644 libs/ext/magic/tar.h
delete mode 100644 libs/ext/magic/vasprintf.c
delete mode 100644 libs/ext/regex/Makefile
delete mode 100755 libs/ext/regex/libregex.def
delete mode 100644 libs/ext/regex/regcomp.c
delete mode 100644 libs/ext/regex/regex.c
delete mode 100644 libs/ext/regex/regex_internal.c
delete mode 100644 libs/ext/regex/regex_internal.h
delete mode 100644 libs/ext/regex/regexec.c
delete mode 100644 libs/ext/szip/.gitignore
delete mode 100644 libs/ext/szip/Makefile
delete mode 100644 libs/ext/zlib/.gitignore
delete mode 100644 libs/ext/zlib/Makefile
delete mode 100644 libs/ext/zlib/adler32.c
delete mode 100644 libs/ext/zlib/compress.c
delete mode 100644 libs/ext/zlib/crc32.c
delete mode 100644 libs/ext/zlib/crc32.h
delete mode 100644 libs/ext/zlib/deflate.c
delete mode 100644 libs/ext/zlib/deflate.h
delete mode 100644 libs/ext/zlib/gzclose.c
delete mode 100644 libs/ext/zlib/gzguts.h
delete mode 100644 libs/ext/zlib/gzlib.c
delete mode 100644 libs/ext/zlib/gzread.c
delete mode 100644 libs/ext/zlib/gzwrite.c
delete mode 100644 libs/ext/zlib/infback.c
delete mode 100644 libs/ext/zlib/inffast.c
delete mode 100644 libs/ext/zlib/inffast.h
delete mode 100644 libs/ext/zlib/inffixed.h
delete mode 100644 libs/ext/zlib/inflate.c
delete mode 100644 libs/ext/zlib/inflate.h
delete mode 100644 libs/ext/zlib/inftrees.c
delete mode 100644 libs/ext/zlib/inftrees.h
delete mode 100644 libs/ext/zlib/sun/stdlib.h
delete mode 100644 libs/ext/zlib/trees.c
delete mode 100644 libs/ext/zlib/trees.h
delete mode 100644 libs/ext/zlib/uncompr.c
delete mode 100644 libs/ext/zlib/zconf.h
delete mode 100644 libs/ext/zlib/zlib-1.2.8.diff
delete mode 100644 libs/ext/zlib/zlib.h
delete mode 100644 libs/ext/zlib/zutil.c
delete mode 100644 libs/ext/zlib/zutil.h
delete mode 100644 libs/hdf5/libkdf5.vers
delete mode 100644 libs/kdb/libwkdb.vers.h
delete mode 100644 libs/kns/libkns.vers
delete mode 100644 libs/kns/libkns.vers.h
delete mode 100644 libs/ncbi-vdb/libncbi-wvdb.vers
delete mode 100644 libs/ngs-c++/libncbi-ngs-c++.vers
delete mode 100644 libs/ngs-jni/libncbi-ngs-jni.vers
create mode 100644 libs/ngs/NGS_FragmentBlob.c
create mode 100644 libs/ngs/NGS_FragmentBlob.h
create mode 100644 libs/ngs/NGS_FragmentBlobIterator.c
copy libs/{ngs-jni/jni_String.h => ngs/NGS_FragmentBlobIterator.h} (55%)
copy libs/{axf/not-my-row.c => sraxf/tokenize-spot_name-generic-fastq.c} (55%)
delete mode 100644 libs/svdb/libsvdb.vers
delete mode 100644 libs/vdb/libwvdb.vers.h
delete mode 100644 test/ext/Makefile
delete mode 100644 test/ext/magic/Makefile
delete mode 100644 test/ext/magic/magictest.cpp
copy libs/kfg/kfg-priv.h => test/kapp/report-kns-agent.c (75%)
copy build/wait_for_file.sh => test/kapp/run-kns-agent.sh (59%)
create mode 100644 test/kfg/flat-sra-kfg.cpp
create mode 100644 test/kfg/flat-sra-kfg/aux_root/empty.kfg
create mode 100644 test/kfg/flat-sra-kfg/new/sraFlat.kfg
create mode 100644 test/kfg/flat-sra-kfg/old/fuse1000.kfg
create mode 100644 test/klib/test-vnamelist.cpp
copy {libs => test}/loader/sequence-writer.c (100%)
create mode 100644 test/ngs-java/ngs_test_lib_load.java
create mode 100644 test/ngs/data/.gitignore
create mode 100644 test/ngs/ngstest_fragmentblob.cpp
create mode 100644 test/ngs/ngstest_makedb.cpp
create mode 100644 test/vdb/db/blob_val_inv_chsum.sra
create mode 100644 test/vdb/test-VDB-3060.cpp
create mode 100644 test/vdb/test-blob-val.cpp
mode change 100755 => 100644 test/vdb/test-sparse-col.cpp
mode change 100755 => 100644 test/vdb/test-wvdb.cpp
create mode 100644 test/vfs/caching-kfg/incomplete.kfg
copy interfaces/.gitignore => test/vfs/repo/wgs/WGS/YY/ZZ/YYZZ10 (100%)
copy test/vfs/{ncbi/public/refseq => repo/wgs/WGS/YY/ZZ}/YYZZ99 (100%)
copy interfaces/.gitignore => test/vfs/repo/wgs2/WGS/YY/ZZ/YYZZ20 (100%)
copy test/vfs/{ncbi/public/refseq => repo/wgs2/WGS/YY/ZZ}/YYZZ99 (100%)
create mode 100644 test/vfs/test-caching.cpp
--
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/ncbi-vdb.git
More information about the debian-med-commit
mailing list