[med-svn] [eigensoft] branch upstream updated (bb2c1be -> a34f862)
Andreas Tille
tille at debian.org
Mon Jul 18 20:16:48 UTC 2016
This is an automated email from the git hooks/post-receive script.
tille pushed a change to branch upstream
in repository eigensoft.
from bb2c1be Imported Upstream version 6.0.1+ds
new dc81bb2 Imported Upstream version 6.1.2+dgsg
new a34f862 Imported Upstream version 6.1.2+dfsg
The 2 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:
EIGENSTRAT/README | 42 +-
EIGENSTRAT/example.pcaselection.chisq | 8 +
EIGENSTRAT/example.pcaselection.par | 5 +
LICENSE.txt | 32 +
POPGEN/README | 16 +-
README | 41 +-
bin/{evec2pca-ped.perl => evec2pca-ped.pl} | 0
bin/{evec2pca.perl => evec2pca.pl} | 0
bin/fixgreen | 25 -
bin/{gc.perl => gc.pl} | 0
bin/ploteig | 168 -
bin/{smarteigenstrat.perl => smarteigenstrat.pl} | 0
bin/{smartpca.perl => smartpca.pl} | 0
include/LICENSE.txt | 32 +
include/admutils.h | 393 +-
include/backup/kjg_fpca.h | 71 -
include/backup/kjg_geno.h | 137 -
include/backup/kjg_gsl.h | 73 -
include/badpairs.h | 28 +-
include/egsubs.h | 19 +-
include/eigqpsubs.h | 360 +-
include/eigsubs.h | 25 +-
include/exclude.h | 10 +-
include/getpars.h | 55 +-
include/globals.h | 2 +-
include/gval.h | 26 +-
include/kjg_fpca.h | 12 +-
include/kjg_geno.h | 137 -
include/kjg_gsl.h | 43 +-
include/lapacke.h | 16305 ---------------------
include/ldsubs.h | 62 +-
include/linsubs.h | 30 +-
include/mcio.h | 355 +-
include/mcmcpars.h | 49 +-
include/not-thread-h | 49 -
include/old.h | 43 -
include/packit.h | 12 +-
include/qpsubs.h | 373 +-
include/ranmath.h | 89 +-
include/regsubs.h | 36 +-
include/smartsubs.h | 7 +-
include/sortit.h | 34 +-
include/statsubs.h | 228 +-
include/strsubs.h | 201 +-
include/twtable.h | 12 +
include/vsubs.h | 486 +-
include/workqueue.h | 21 +-
include/xpsubs.h | 65 +-
include/xsearch.h | 42 +-
src/LICENSE.txt | 32 +
src/Makefile | 49 +-
src/admutils.c | 1894 +--
src/baseprog.c | 421 +-
src/convertf.c | 1728 ++-
src/egsubs.c | 260 +-
src/eigensrc/LICENSE.txt | 32 +
src/eigensrc/eigenstrat.c | 637 +-
src/eigensrc/eigenstratQTL.c | 609 +-
src/eigensrc/eigsubs.c | 338 +-
src/eigensrc/eigx.c | 325 +-
src/eigensrc/exclude.c | 146 +-
src/eigensrc/fffpca.c | 5448 +++----
src/eigensrc/newpca.c | 5460 +++----
src/eigensrc/old.c | 3213 ----
src/eigensrc/oldfffpca.c | 3231 ----
src/eigensrc/pcatoy.c | 47 +-
src/eigensrc/q1 | 105 -
src/eigensrc/qdiff | 1000 --
src/eigensrc/qq2.c | 29 -
src/eigensrc/qqq.c | 3139 ----
src/eigensrc/smarteigenstrat.c | 821 +-
src/eigensrc/smartpca.c | 5464 +++----
src/eigensrc/smartrel.c | 2729 ++--
src/eigensrc/smartsubs.c | 159 +-
src/eigensrc/twstats.c | 223 +-
src/eigx.c | 325 +-
src/exclude.c | 146 +-
src/gval.c | 36 +-
src/gval.h | 13 -
src/h2d.c | 146 +-
src/ksrc/LICENSE.txt | 32 +
src/ksrc/kjg_fpca.c | 38 +-
src/ksrc/kjg_gsl.c | 67 +-
src/mcio.c | 8631 ++++++-----
src/mergeit.c | 824 +-
src/mmakefile | 99 -
src/nicksrc/LICENSE.txt | 32 +
src/nicksrc/Makefile | 6 +-
src/nicksrc/gauss.c | 61 +-
src/nicksrc/gds.c | 1075 +-
src/nicksrc/getpars.c | 699 +-
src/nicksrc/linsubs.c | 532 +-
src/nicksrc/sortit.c | 362 +-
src/nicksrc/statsubs.c | 3519 +++--
src/nicksrc/strsubs.c | 2427 +--
src/nicksrc/twtable.c | 94 +
src/nicksrc/vsubs.c | 2728 ++--
src/nicksrc/xsearch.c | 458 +-
src/oldgval.c | 226 -
src/oldmakefile | 74 -
src/oldmcio.c | 4924 -------
src/pca.c | 510 +-
src/pcaselection.c | 344 +
src/qpsubs.c | 6098 ++++----
src/qq | 2 -
src/qqq.c | 5239 ++++---
src/regsubs.c | 766 +-
src/smartpca.gmon.out | Bin 143681 -> 0 bytes
src/smartpca.gmon.profile | 863 --
src/smarttables/twtable | 164 -
src/twsubs.c | 385 +-
111 files changed, 36310 insertions(+), 63433 deletions(-)
create mode 100644 EIGENSTRAT/example.pcaselection.chisq
create mode 100644 EIGENSTRAT/example.pcaselection.par
create mode 100644 LICENSE.txt
mode change 100755 => 100644 README
rename bin/{evec2pca-ped.perl => evec2pca-ped.pl} (100%)
rename bin/{evec2pca.perl => evec2pca.pl} (100%)
delete mode 100755 bin/fixgreen
rename bin/{gc.perl => gc.pl} (100%)
delete mode 100755 bin/ploteig
rename bin/{smarteigenstrat.perl => smarteigenstrat.pl} (100%)
rename bin/{smartpca.perl => smartpca.pl} (100%)
create mode 100644 include/LICENSE.txt
delete mode 100644 include/backup/kjg_fpca.h
delete mode 100644 include/backup/kjg_geno.h
delete mode 100644 include/backup/kjg_gsl.h
delete mode 100644 include/kjg_geno.h
delete mode 100644 include/lapacke.h
delete mode 100644 include/not-thread-h
delete mode 100644 include/old.h
create mode 100644 include/twtable.h
create mode 100644 src/LICENSE.txt
create mode 100644 src/eigensrc/LICENSE.txt
delete mode 100644 src/eigensrc/old.c
delete mode 100644 src/eigensrc/oldfffpca.c
delete mode 100644 src/eigensrc/q1
delete mode 100644 src/eigensrc/qdiff
delete mode 100644 src/eigensrc/qq2.c
delete mode 100644 src/eigensrc/qqq.c
delete mode 100644 src/gval.h
create mode 100644 src/ksrc/LICENSE.txt
delete mode 100644 src/mmakefile
create mode 100644 src/nicksrc/LICENSE.txt
create mode 100644 src/nicksrc/twtable.c
delete mode 100644 src/oldgval.c
delete mode 100644 src/oldmakefile
delete mode 100644 src/oldmcio.c
create mode 100644 src/pcaselection.c
delete mode 100644 src/qq
delete mode 100644 src/smartpca.gmon.out
delete mode 100644 src/smartpca.gmon.profile
delete mode 100644 src/smarttables/twtable
--
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