[ARVADOS] updated: b989c72d3a2321f2a5d8d8226481d0adeb0a546c

[git at public.curoverse.com]

Summary of changes:
 .../app/controllers/projects_controller.rb         |   2 +-
 .../app/views/collections/_show_recent.html.erb    |  22 +--
 .../pipeline_instances/_show_components.html.erb   |  10 +-
 apps/workbench/app/views/projects/_choose.html.erb |  20 +-
 .../app/views/projects/_show_contents.html.erb     | 123 ++++++++++++
 .../views/projects/_show_data_collections.html.erb |   1 +
 crunch_scripts/arvados-bcbio-nextgen.py            |   4 +
 crunch_scripts/run-command                         |  94 ++++++---
 doc/_config.yml                                    |   3 +-
 doc/_includes/_ssh_addkey.liquid                   |  26 +++
 doc/_includes/_ssh_intro.liquid                    |   7 +
 doc/_includes/_tutorial_expectations.liquid        |   1 +
 doc/images/ssh-adding-public-key.png               | Bin 9382 -> 17463 bytes
 doc/images/workbench-dashboard.png                 | Bin 0 -> 44822 bytes
 .../check-environment.html.textile.liquid          |   2 +-
 .../ssh-access-unix.html.textile.liquid            | 115 +++++++++++
 .../ssh-access-windows.html.textile.liquid         |  76 ++++++++
 .../getting_started/ssh-access.html.textile.liquid | 210 ---------------------
 .../getting_started/workbench.html.textile.liquid  |   4 +-
 doc/user/reference/api-tokens.html.textile.liquid  |   2 +-
 doc/user/reference/sdk-cli.html.textile.liquid     |   2 +-
 ...rial-gatk-variantfiltration.html.textile.liquid |   2 +-
 .../topics/tutorial-job-debug.html.textile.liquid  |   7 +-
 doc/user/topics/tutorial-job1.html.textile.liquid  |   8 +-
 .../tutorial-trait-search.html.textile.liquid      |   2 +-
 .../running-external-program.html.textile.liquid   |   4 +-
 .../tutorial-firstscript.html.textile.liquid       |   8 +-
 .../tutorials/tutorial-keep.html.textile.liquid    |   3 +-
 .../tutorial-new-pipeline.html.textile.liquid      |   4 +-
 ...tutorial-pipeline-workbench.html.textile.liquid |  24 ++-
 sdk/cli/bin/arv-run-pipeline-instance              |  49 +++--
 sdk/cli/bin/crunch-job                             |  19 +-
 sdk/python/arvados/commands/put.py                 | 100 ++++++++--
 sdk/python/tests/test_arv_put.py                   | 151 ++++++++++++++-
 services/api/Gemfile                               |   2 +-
 services/api/Gemfile.lock                          |   6 +-
 services/api/test/integration/pipeline_test.rb     |  36 ++++
 .../keep/src/arvados.org/keepproxy/keepproxy.go    |  31 ++-
 38 files changed, 818 insertions(+), 362 deletions(-)
 create mode 100644 apps/workbench/app/views/projects/_show_contents.html.erb
 create mode 100644 doc/_includes/_ssh_addkey.liquid
 create mode 100644 doc/_includes/_ssh_intro.liquid
 create mode 100644 doc/_includes/_tutorial_expectations.liquid
 create mode 100644 doc/images/workbench-dashboard.png
 create mode 100644 doc/user/getting_started/ssh-access-unix.html.textile.liquid
 create mode 100644 doc/user/getting_started/ssh-access-windows.html.textile.liquid
 delete mode 100644 doc/user/getting_started/ssh-access.html.textile.liquid
 create mode 100644 services/api/test/integration/pipeline_test.rb

       via  b989c72d3a2321f2a5d8d8226481d0adeb0a546c (commit)
       via  8c41d740562d1b3efb61489e285353d689301743 (commit)
       via  5a068be79fad0efa8060001673a86632a594c040 (commit)
       via  463238074dadc8dd507224e848fe4d1432136d84 (commit)
       via  ca080c94faecaaff538846773aad82575bbe1916 (commit)
       via  cacc4e9a3cfacb7a4951cc3f6dc32444116b913e (commit)
       via  8d580c2c3e6ea162a3844a2ed114c9b8873068c9 (commit)
       via  e007ef71a69c0429eb936a1393dc9e7ec1cc4db1 (commit)
       via  b5b0f8c9822435fa5faf0e59b65495806ea82dcb (commit)
       via  8b18b9333fbc6ce996dfe463d630b207f084d5d3 (commit)
       via  fc6dc21e56d356aebad967c806f32dbb0f1f3194 (commit)
       via  25e33b1caae27d60d8a915b708b431766d9eb7cd (commit)
       via  fd2c7f4ea5bdf6e03dfccd3747ea50d9e183ee1e (commit)
       via  8768c4184c17debc00e6b5ea0977da5b4c26c6f0 (commit)
       via  d23fba84b810714ec2ab41a1501a39a5c665dcd4 (commit)
       via  110bbb02892911796b2f0e6a7c3562cc0fe6e5d5 (commit)
       via  10898768160571a6963066d8e7236f89b3e0b29d (commit)
       via  8793c9cfb3b2e1a9c9ddadbfa7809598c07e27b2 (commit)
       via  377dfa814e50bb021ddf2aead4bf08144d74f7da (commit)
       via  22a4724b136c749b8545de0c6dbd451030dfc43b (commit)
       via  1d387fdfc68ba8c07ab42aa104ab3a8369e7d0ec (commit)
       via  870c8d93da0a1532c752bd5feda5a91e1621e40d (commit)
       via  980e13c7716fd72eca84070d83e8586bdb22eda4 (commit)
       via  0e765d1f39a9355df4b8cdb54bfa60cb3fbe78ed (commit)
       via  744e90e697a085661d4d0b6b1ec33642199fcd43 (commit)
       via  96df15a015600cb2cf55f5a2791cf42371b2feed (commit)
       via  8445c610f4a03ac775a17ae20ac219fbbe63a6ab (commit)
       via  db1957ae42446d4e630800391c113b942c219227 (commit)
       via  4b2ab09e3ee91cb63ae42a21d0efb004c053af8a (commit)
       via  d92c79edf54df96d259d3c99eb2a5461b4111340 (commit)
       via  d0fe5e9f95b45580d1d234a5adbe34705c7be1ff (commit)
       via  0f8504de1ab3a0ff2e33d23cc421a150cacf5d86 (commit)
       via  d27def0b6177ee6f628e6f11fffd0280c8d72558 (commit)
       via  67df686d24831e23283923e383838c1ab5c0db67 (commit)
       via  dc680bd83cfe84feadc5fcd9c1885e1738a84216 (commit)
       via  28558b8b89a3baad2dcc0da714bd90d31f1578c5 (commit)
       via  70d06dfe2f722e999b06b583748fbd92e3585ef0 (commit)
       via  cd2d574e65847d801c081f031859fe63aefa1c35 (commit)
       via  e820c9c4c310be584f49f3f33994d535bcd05711 (commit)
       via  ebd7d57174dd06515a9938e227d2aa5d5dc00908 (commit)
       via  d61435c10c5fc3b6e346a7668bd9b44a7b12c67e (commit)
       via  ff15e4e93e8c45239f653d495f7c76cfe4239337 (commit)
       via  1e8b1d0e816e09bee9a819277fd91da1dea6fa35 (commit)
       via  9a41032ed98c3cf5869a0a793380d673b16f1293 (commit)
       via  daaaeac3d97f75e7750091623025d93f2aa01382 (commit)
       via  ee4212cfcef60795c229602a4e585cf36ce71c99 (commit)
       via  ef34e7256fe96d2ad4c3f27ca0ba4bef14a195ff (commit)
       via  7d5a2544cc4bee33a1ea67c0229acf6700c5327c (commit)
       via  7d2a76ff4fd06d9bdb3fa5d30474e1294eedaa1d (commit)
       via  0951c8832286665dd3b2eafd829a2dab0630ade8 (commit)
       via  db4458117af1d4eff14760dfd05e2e6e289fb9c1 (commit)
       via  96b50abcdd6edc3540ba61e934b88906bb5e42c8 (commit)
       via  e22c5f472b41c8f71060a3788e045ae4cd043756 (commit)
       via  ea1a5e8a4e5370dde8fc10ac3889b81053b11187 (commit)
       via  3d2a90bcc1c96a8f3b920038aba264069307a609 (commit)
       via  4e9288dfe1c21241cf8959b9fba6ca31a1d62097 (commit)
       via  0456c65364c2189ac64775a40ac6279f8ef61802 (commit)
       via  0b8289d0b2aa1a951af23600a24b6cbb67512598 (commit)
       via  7410cd971da46bffdc7b30b9126f97aa195e8d9c (commit)
       via  7bd2ee234481ccdb28315c4fd41b6a6bf71033f5 (commit)
       via  6006e4dff665c1331495a09df8bbff07d4acd61a (commit)
       via  a24c2a7a7c8916664ea047c2e4f04bf2f0667082 (commit)
       via  a2dd2450b4f656affb90d197b9b892d17f15400f (commit)
       via  b356a7af84c41f8df246abd7eefafeeb8b49543f (commit)
       via  612cac77f91bf09ce648b9ad388fd643b2f13ef4 (commit)
       via  4232d876ce3c2a0fec1760a7f023ca200ce129e5 (commit)
       via  a1fc48d0bdba5062da9d8ea57e2cda805421aab8 (commit)
       via  060faf29bb6c267ad9489ed64afcc04ddc93e974 (commit)
       via  6a28d53bd57eb04cc52e4fee4c887ed43cd4bdd5 (commit)
       via  cdd27893c0c2f21425d8347f4c10bc3788615bae (commit)
       via  a7f44885cf21c85bea2bd0f70c553760ef928254 (commit)
       via  6e60f8fa650d9310e1dce51d79eece16f06363f7 (commit)
       via  8e57e7c0cc350c8024b2323870f982a2840ae5a1 (commit)
       via  7afa414382abb13a644fe2e391403f5aee06b8ae (commit)
      from  9e24edb1d9624b6aed38464c70cab5027586abbc (commit)

Those revisions listed above that are new to this repository have
not appeared on any other notification email; so we list those
revisions in full, below.


-----------------------------------------------------------------------


hooks/post-receive
--