[med-svn] [plink1.9] branch master updated (4335ca0 -> ce4c693)

[Dylan Aïssi]

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bob.dybian-guest pushed a change to branch master
in repository plink1.9.

      from  4335ca0   Update uscan options
       new  fb6c79d   Imported Upstream version 1.90~b3.40-160816
       new  ce4c693   Refresh patches

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:
 Makefile                                        |   2 +-
 debian/changelog                                |   3 +-
 debian/patches/01_Fix_use_dynamic_linking.patch |  61 ++++++
 debian/patches/01_Fix_use_internal_lib.patch    |  63 ------
 debian/patches/02_Activate_Stable_Build.patch   |   8 +-
 debian/patches/series                           |   2 +-
 pigz.c                                          |  12 +-
 plink.c                                         | 248 +++++++++++++++++-------
 plink_assoc.c                                   |   2 +-
 plink_calc.c                                    |  41 ++--
 plink_cnv.h                                     |   2 -
 plink_common.c                                  | 107 +++++++---
 plink_common.h                                  |  77 +++++---
 plink_data.c                                    | 116 ++++++++---
 plink_dosage.c                                  |   2 +-
 plink_glm.c                                     |  12 +-
 plink_help.c                                    | 124 ++++++------
 plink_lasso.c                                   |   2 +-
 plink_ld.c                                      | 155 +++++++++++----
 plink_ld.h                                      |  34 ++--
 plink_matrix.c                                  |  14 +-
 plink_matrix.h                                  |   7 +
 plink_misc.c                                    |  15 +-
 plink_set.c                                     |   2 +-
 24 files changed, 729 insertions(+), 382 deletions(-)
 create mode 100644 debian/patches/01_Fix_use_dynamic_linking.patch
 delete mode 100644 debian/patches/01_Fix_use_internal_lib.patch

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