Merge branch '18488-nonblocking-advisory-lock'

fixes #18488

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>

diff --git a/doc/install/configure-s3-object-storage.html.textile.liquid b/doc/install/configure-s3-object-storage.html.textile.liquid
index e6b1e095ed8e09b4ee6052196a29b23ec87d7b66..e9866d510344da4e9a58ba7c8a5deee268540da1 100644 (file)
--- a/doc/install/configure-s3-object-storage.html.textile.liquid
+++ b/doc/install/configure-s3-object-storage.html.textile.liquid
@@ -48,7 +48,7 @@ Volumes are configured in the @Volumes@ section of the cluster configuration fil
 
           # Storage provider region. For Google Cloud Storage, use ""
           # or omit.
-          Region: <span class="userinput">us-east-1a</span>
+          Region: <span class="userinput">us-east-1</span>
 
           # Storage provider endpoint. For Amazon S3, use "" or
           # omit. For Google Cloud Storage, use

diff --git a/go.mod b/go.mod
index f0fc546dd57832cd41b45ab50d1adc7378d5733e..0ea3dd9169db9ad970a4a985ade5fb525878ee9f 100644 (file)
--- a/go.mod
+++ b/go.mod
@@ -5,8 +5,10 @@ go 1.13
 require (
        github.com/AdRoll/goamz v0.0.0-20170825154802-2731d20f46f4
        github.com/Azure/azure-sdk-for-go v45.1.0+incompatible
-       github.com/Azure/go-autorest/autorest v0.11.3
-       github.com/Azure/go-autorest/autorest/azure/auth v0.5.1
+       github.com/Azure/go-autorest/autorest v0.11.22
+       github.com/Azure/go-autorest/autorest/adal v0.9.17 // indirect
+       github.com/Azure/go-autorest/autorest/azure/auth v0.5.9
+       github.com/Azure/go-autorest/autorest/azure/cli v0.4.4 // indirect
        github.com/Azure/go-autorest/autorest/to v0.4.0
        github.com/Azure/go-autorest/autorest/validation v0.3.0 // indirect
        github.com/Microsoft/go-winio v0.4.5 // indirect
@@ -33,6 +35,7 @@ require (
        github.com/go-asn1-ber/asn1-ber v1.4.1 // indirect
        github.com/go-ldap/ldap v3.0.3+incompatible
        github.com/gogo/protobuf v1.1.1
+       github.com/golang-jwt/jwt/v4 v4.1.0 // indirect
        github.com/google/shlex v0.0.0-20191202100458-e7afc7fbc510
        github.com/gorilla/context v1.1.1 // indirect
        github.com/gorilla/mux v1.6.1-0.20180107155708-5bbbb5b2b572
@@ -58,8 +61,8 @@ require (
        github.com/sirupsen/logrus v1.8.1
        github.com/src-d/gcfg v1.3.0 // indirect
        github.com/xanzy/ssh-agent v0.1.0 // indirect
-       golang.org/x/crypto v0.0.0-20200622213623-75b288015ac9
-       golang.org/x/net v0.0.0-20210805182204-aaa1db679c0d
+       golang.org/x/crypto v0.0.0-20211117183948-ae814b36b871
+       golang.org/x/net v0.0.0-20211112202133-69e39bad7dc2
        golang.org/x/oauth2 v0.0.0-20190604053449-0f29369cfe45
        golang.org/x/sys v0.0.0-20210809222454-d867a43fc93e
        golang.org/x/tools v0.1.7 // indirect

diff --git a/go.sum b/go.sum
index 0965a46961a3f6a9f6f4850098190b7aa71acc44..28ff3dadc9b9fe03785932b474a865e7e09075db 100644 (file)
--- a/go.sum
+++ b/go.sum
@@ -6,40 +6,39 @@ github.com/Azure/azure-sdk-for-go v45.1.0+incompatible h1:kxtaPD8n2z5Za+9e3sKsYG
 github.com/Azure/azure-sdk-for-go v45.1.0+incompatible/go.mod h1:9XXNKU+eRnpl9moKnB4QOLf1HestfXbmab5FXxiDBjc=
 github.com/Azure/go-autorest v14.2.0+incompatible h1:V5VMDjClD3GiElqLWO7mz2MxNAK/vTfRHdAubSIPRgs=
 github.com/Azure/go-autorest v14.2.0+incompatible/go.mod h1:r+4oMnoxhatjLLJ6zxSWATqVooLgysK6ZNox3g/xq24=
-github.com/Azure/go-autorest/autorest v0.11.0/go.mod h1:JFgpikqFJ/MleTTxwepExTKnFUKKszPS8UavbQYUMuw=
-github.com/Azure/go-autorest/autorest v0.11.3 h1:fyYnmYujkIXUgv88D9/Wo2ybE4Zwd/TmQd5sSI5u2Ws=
-github.com/Azure/go-autorest/autorest v0.11.3/go.mod h1:JFgpikqFJ/MleTTxwepExTKnFUKKszPS8UavbQYUMuw=
-github.com/Azure/go-autorest/autorest/adal v0.9.0/go.mod h1:/c022QCutn2P7uY+/oQWWNcK9YU+MH96NgK+jErpbcg=
-github.com/Azure/go-autorest/autorest/adal v0.9.2 h1:Aze/GQeAN1RRbGmnUJvUj+tFGBzFdIg3293/A9rbxC4=
-github.com/Azure/go-autorest/autorest/adal v0.9.2/go.mod h1:/3SMAM86bP6wC9Ev35peQDUeqFZBMH07vvUOmg4z/fE=
-github.com/Azure/go-autorest/autorest/azure/auth v0.5.1 h1:bvUhZciHydpBxBmCheUgxxbSwJy7xcfjkUsjUcqSojc=
-github.com/Azure/go-autorest/autorest/azure/auth v0.5.1/go.mod h1:ea90/jvmnAwDrSooLH4sRIehEPtG/EPUXavDh31MnA4=
-github.com/Azure/go-autorest/autorest/azure/cli v0.4.0 h1:Ml+UCrnlKD+cJmSzrZ/RDcDw86NjkRUpnFh7V5JUhzU=
-github.com/Azure/go-autorest/autorest/azure/cli v0.4.0/go.mod h1:JljT387FplPzBA31vUcvsetLKF3pec5bdAxjVU4kI2s=
+github.com/Azure/go-autorest/autorest v0.11.19/go.mod h1:dSiJPy22c3u0OtOKDNttNgqpNFY/GeWa7GH/Pz56QRA=
+github.com/Azure/go-autorest/autorest v0.11.22 h1:bXiQwDjrRmBQOE67bwlvUKAC1EU1yZTPQ38c+bstZws=
+github.com/Azure/go-autorest/autorest v0.11.22/go.mod h1:BAWYUWGPEtKPzjVkp0Q6an0MJcJDsoh5Z1BFAEFs4Xs=
+github.com/Azure/go-autorest/autorest/adal v0.9.5/go.mod h1:B7KF7jKIeC9Mct5spmyCB/A8CG/sEz1vwIRGv/bbw7A=
+github.com/Azure/go-autorest/autorest/adal v0.9.13/go.mod h1:W/MM4U6nLxnIskrw4UwWzlHfGjwUS50aOsc/I3yuU8M=
+github.com/Azure/go-autorest/autorest/adal v0.9.14/go.mod h1:W/MM4U6nLxnIskrw4UwWzlHfGjwUS50aOsc/I3yuU8M=
+github.com/Azure/go-autorest/autorest/adal v0.9.17 h1:esOPl2dhcz9P3jqBSJ8tPGEj2EqzPPT6zfyuloiogKY=
+github.com/Azure/go-autorest/autorest/adal v0.9.17/go.mod h1:XVVeme+LZwABT8K5Lc3hA4nAe8LDBVle26gTrguhhPQ=
+github.com/Azure/go-autorest/autorest/azure/auth v0.5.9 h1:Y2CgdzitFDsdMwYMzf9LIZWrrTFysqbRc7b94XVVJ78=
+github.com/Azure/go-autorest/autorest/azure/auth v0.5.9/go.mod h1:hg3/1yw0Bq87O3KvvnJoAh34/0zbP7SFizX/qN5JvjU=
+github.com/Azure/go-autorest/autorest/azure/cli v0.4.2/go.mod h1:7qkJkT+j6b+hIpzMOwPChJhTqS8VbsqqgULzMNRugoM=
+github.com/Azure/go-autorest/autorest/azure/cli v0.4.4 h1:iuooz5cZL6VRcO7DVSFYxRcouqn6bFVE/e77Wts50Zk=
+github.com/Azure/go-autorest/autorest/azure/cli v0.4.4/go.mod h1:yAQ2b6eP/CmLPnmLvxtT1ALIY3OR1oFcCqVBi8vHiTc=
 github.com/Azure/go-autorest/autorest/date v0.3.0 h1:7gUk1U5M/CQbp9WoqinNzJar+8KY+LPI6wiWrP/myHw=
 github.com/Azure/go-autorest/autorest/date v0.3.0/go.mod h1:BI0uouVdmngYNUzGWeSYnokU+TrmwEsOqdt8Y6sso74=
-github.com/Azure/go-autorest/autorest/mocks v0.4.0/go.mod h1:LTp+uSrOhSkaKrUy935gNZuuIPPVsHlr9DSOxSayd+k=
 github.com/Azure/go-autorest/autorest/mocks v0.4.1 h1:K0laFcLE6VLTOwNgSxaGbUcLPuGXlNkbVvq4cW4nIHk=
 github.com/Azure/go-autorest/autorest/mocks v0.4.1/go.mod h1:LTp+uSrOhSkaKrUy935gNZuuIPPVsHlr9DSOxSayd+k=
 github.com/Azure/go-autorest/autorest/to v0.4.0 h1:oXVqrxakqqV1UZdSazDOPOLvOIz+XA683u8EctwboHk=
 github.com/Azure/go-autorest/autorest/to v0.4.0/go.mod h1:fE8iZBn7LQR7zH/9XU2NcPR4o9jEImooCeWJcYV/zLE=
 github.com/Azure/go-autorest/autorest/validation v0.3.0 h1:3I9AAI63HfcLtphd9g39ruUwRI+Ca+z/f36KHPFRUss=
 github.com/Azure/go-autorest/autorest/validation v0.3.0/go.mod h1:yhLgjC0Wda5DYXl6JAsWyUe4KVNffhoDhG0zVzUMo3E=
-github.com/Azure/go-autorest/logger v0.2.0 h1:e4RVHVZKC5p6UANLJHkM4OfR1UKZPj8Wt8Pcx+3oqrE=
-github.com/Azure/go-autorest/logger v0.2.0/go.mod h1:T9E3cAhj2VqvPOtCYAvby9aBXkZmbF5NWuPV8+WeEW8=
+github.com/Azure/go-autorest/logger v0.2.1 h1:IG7i4p/mDa2Ce4TRyAO8IHnVhAVF3RFU+ZtXWSmf4Tg=
+github.com/Azure/go-autorest/logger v0.2.1/go.mod h1:T9E3cAhj2VqvPOtCYAvby9aBXkZmbF5NWuPV8+WeEW8=
 github.com/Azure/go-autorest/tracing v0.6.0 h1:TYi4+3m5t6K48TGI9AUdb+IzbnSxvnvUMfuitfgcfuo=
 github.com/Azure/go-autorest/tracing v0.6.0/go.mod h1:+vhtPC754Xsa23ID7GlGsrdKBpUA79WCAKPPZVC2DeU=
-github.com/BurntSushi/toml v0.3.1 h1:WXkYYl6Yr3qBf1K79EBnL4mak0OimBfB0XUf9Vl28OQ=
 github.com/BurntSushi/toml v0.3.1/go.mod h1:xHWCNGjB5oqiDr8zfno3MHue2Ht5sIBksp03qcyfWMU=
 github.com/Microsoft/go-winio v0.4.5 h1:U2XsGR5dBg1yzwSEJoP2dE2/aAXpmad+CNG2hE9Pd5k=
 github.com/Microsoft/go-winio v0.4.5/go.mod h1:VhR8bwka0BXejwEJY73c50VrPtXAaKcyvVC4A4RozmA=
 github.com/alcortesm/tgz v0.0.0-20161220082320-9c5fe88206d7 h1:uSoVVbwJiQipAclBbw+8quDsfcvFjOpI5iCf4p/cqCs=
 github.com/alcortesm/tgz v0.0.0-20161220082320-9c5fe88206d7/go.mod h1:6zEj6s6u/ghQa61ZWa/C2Aw3RkjiTBOix7dkqa1VLIs=
 github.com/alecthomas/template v0.0.0-20160405071501-a0175ee3bccc/go.mod h1:LOuyumcjzFXgccqObfd/Ljyb9UuFJ6TxHnclSeseNhc=
-github.com/alecthomas/template v0.0.0-20190718012654-fb15b899a751 h1:JYp7IbQjafoB+tBA3gMyHYHrpOtNuDiK/uB5uXxq5wM=
 github.com/alecthomas/template v0.0.0-20190718012654-fb15b899a751/go.mod h1:LOuyumcjzFXgccqObfd/Ljyb9UuFJ6TxHnclSeseNhc=
 github.com/alecthomas/units v0.0.0-20151022065526-2efee857e7cf/go.mod h1:ybxpYRFXyAe+OPACYpWeL0wqObRcbAqCMya13uyzqw0=
-github.com/alecthomas/units v0.0.0-20190717042225-c3de453c63f4 h1:Hs82Z41s6SdL1CELW+XaDYmOH4hkBN4/N9og/AsOv7E=
 github.com/alecthomas/units v0.0.0-20190717042225-c3de453c63f4/go.mod h1:ybxpYRFXyAe+OPACYpWeL0wqObRcbAqCMya13uyzqw0=
 github.com/anmitsu/go-shlex v0.0.0-20161002113705-648efa622239 h1:kFOfPq6dUM1hTo4JG6LR5AXSUEsOjtdm0kw0FtQtMJA=
 github.com/anmitsu/go-shlex v0.0.0-20161002113705-648efa622239/go.mod h1:2FmKhYUyUczH0OGQWaF5ceTx0UBShxjsH6f8oGKYe2c=
@@ -60,13 +59,11 @@ github.com/beorn7/perks v1.0.1 h1:VlbKKnNfV8bJzeqoa4cOKqO6bYr3WgKZxO8Z16+hsOM=
 github.com/beorn7/perks v1.0.1/go.mod h1:G2ZrVWU2WbWT9wwq4/hrbKbnv/1ERSJQ0ibhJ6rlkpw=
 github.com/bgentry/speakeasy v0.1.0 h1:ByYyxL9InA1OWqxJqqp2A5pYHUrCiAL6K3J+LKSsQkY=
 github.com/bgentry/speakeasy v0.1.0/go.mod h1:+zsyZBPWlz7T6j88CTgSN5bM796AkVf0kBD4zp0CCIs=
-github.com/boltdb/bolt v1.3.1 h1:JQmyP4ZBrce+ZQu0dY660FMfatumYDLun9hBCUVIkF4=
 github.com/boltdb/bolt v1.3.1/go.mod h1:clJnj/oiGkjum5o1McbSZDSLxVThjynRyGBgiAx27Ps=
 github.com/bradleypeabody/godap v0.0.0-20170216002349-c249933bc092 h1:0Di2onNnlN5PAyWPbqlPyN45eOQ+QW/J9eqLynt4IV4=
 github.com/bradleypeabody/godap v0.0.0-20170216002349-c249933bc092/go.mod h1:8IzBjZCRSnsvM6MJMG8HNNtnzMl48H22rbJL2kRUJ0Y=
 github.com/cespare/xxhash/v2 v2.1.0 h1:yTUvW7Vhb89inJ+8irsUqiWjh8iT6sQPZiQzI6ReGkA=
 github.com/cespare/xxhash/v2 v2.1.0/go.mod h1:dgIUBU3pDso/gPgZ1osOZ0iQf77oPR28Tjxl5dIMyVM=
-github.com/client9/misspell v0.3.4 h1:ta993UF76GwbvJcIo3Y68y/M3WxlpEHPWIGDkJYwzJI=
 github.com/client9/misspell v0.3.4/go.mod h1:qj6jICC3Q7zFZvVWo7KLAzC3yx5G7kyvSDkc90ppPyw=
 github.com/coreos/go-oidc v2.1.0+incompatible h1:sdJrfw8akMnCuUlaZU3tE/uYXFgfqom8DBE9so9EBsM=
 github.com/coreos/go-oidc v2.1.0+incompatible/go.mod h1:CgnwVTmzoESiwO9qyAFEMiHoZ1nMCKZlZ9V6mm3/LKc=
@@ -77,10 +74,9 @@ github.com/creack/pty v1.1.7/go.mod h1:lj5s0c3V2DBrqTV7llrYr5NG6My20zk30Fl46Y7Do
 github.com/davecgh/go-spew v1.1.0/go.mod h1:J7Y8YcW2NihsgmVo/mv3lAwl/skON4iLHjSsI+c5H38=
 github.com/davecgh/go-spew v1.1.1 h1:vj9j/u1bqnvCEfJOwUhtlOARqs3+rkHYY13jYWTU97c=
 github.com/davecgh/go-spew v1.1.1/go.mod h1:J7Y8YcW2NihsgmVo/mv3lAwl/skON4iLHjSsI+c5H38=
-github.com/dgrijalva/jwt-go v3.2.0+incompatible h1:7qlOGliEKZXTDg6OTjfoBKDXWrumCAMpl/TFQ4/5kLM=
-github.com/dgrijalva/jwt-go v3.2.0+incompatible/go.mod h1:E3ru+11k8xSBh+hMPgOLZmtrrCbhqsmaPHjLKYnJCaQ=
-github.com/dimchansky/utfbom v1.1.0 h1:FcM3g+nofKgUteL8dm/UpdRXNC9KmADgTpLKsu0TRo4=
 github.com/dimchansky/utfbom v1.1.0/go.mod h1:rO41eb7gLfo8SF1jd9F8HplJm1Fewwi4mQvIirEdv+8=
+github.com/dimchansky/utfbom v1.1.1 h1:vV6w1AhK4VMnhBno/TPVCoK9U/LP0PkLCS9tbxHdi/U=
+github.com/dimchansky/utfbom v1.1.1/go.mod h1:SxdoEBH5qIqFocHMyGOXVAybYJdr71b1Q/j0mACtrfE=
 github.com/dnaeon/go-vcr v1.0.1 h1:r8L/HqC0Hje5AXMu1ooW8oyQyOFv4GxqpL0nRP7SLLY=
 github.com/dnaeon/go-vcr v1.0.1/go.mod h1:aBB1+wY4s93YsC3HHjMBMrwTj2R9FHDzUr9KyGc8n1E=
 github.com/docker/distribution v2.6.0-rc.1.0.20180105232752-277ed486c948+incompatible h1:PVtvnmmxSMUcT5AY6vG7sCCzRg3eyoW6vQvXtITC60c=
@@ -95,6 +91,7 @@ github.com/dustin/go-humanize v1.0.0 h1:VSnTsYCnlFHaM2/igO1h6X3HA71jcobQuxemgkq4
 github.com/dustin/go-humanize v1.0.0/go.mod h1:HtrtbFcZ19U5GC7JDqmcUSB87Iq5E25KnS6fMYU6eOk=
 github.com/flynn/go-shlex v0.0.0-20150515145356-3f9db97f8568 h1:BHsljHzVlRcyQhjrss6TZTdY2VfCqZPbv5k3iBFa2ZQ=
 github.com/flynn/go-shlex v0.0.0-20150515145356-3f9db97f8568/go.mod h1:xEzjJPgXI435gkrCt3MPfRiAkVrwSbHsst4LCFVfpJc=
+github.com/form3tech-oss/jwt-go v3.2.2+incompatible/go.mod h1:pbq4aXjuKjdthFRnoDwaVPLA+WlJuPGy+QneDUgJi2k=
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 github.com/ghodss/yaml v1.0.0 h1:wQHKEahhL6wmXdzwWG11gIVCkOv05bNOh+Rxn0yngAk=
@@ -104,40 +101,35 @@ github.com/gliderlabs/ssh v0.2.2/go.mod h1:U7qILu1NlMHj9FlMhZLlkCdDnU1DBEAqr0aev
 github.com/go-asn1-ber/asn1-ber v1.4.1 h1:qP/QDxOtmMoJVgXHCXNzDpA0+wkgYB2x5QoLMVOciyw=
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 github.com/go-kit/kit v0.9.0/go.mod h1:xBxKIO96dXMWWy0MnWVtmwkA9/13aqxPnvrjFYMA2as=
 github.com/go-ldap/ldap v3.0.3+incompatible h1:HTeSZO8hWMS1Rgb2Ziku6b8a7qRIZZMHjsvuZyatzwk=
 github.com/go-ldap/ldap v3.0.3+incompatible/go.mod h1:qfd9rJvER9Q0/D/Sqn1DfHRoBp40uXYvFoEVrNEPqRc=
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 github.com/gogo/protobuf v1.1.1 h1:72R+M5VuhED/KujmZVcIquuo8mBgX4oVda//DQb3PXo=
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+github.com/golang-jwt/jwt/v4 v4.0.0/go.mod h1:/xlHOz8bRuivTWchD4jCa+NbatV+wEUSzwAxVc6locg=
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 github.com/google/martian v2.1.0+incompatible/go.mod h1:9I4somxYTbIHy5NJKHRl3wXiIaQGbYVAs8BPL6v8lEs=
-github.com/google/pprof v0.0.0-20181206194817-3ea8567a2e57 h1:eqyIo2HjKhKe/mJzTG8n4VqvLXIOEG+SLdDqX7xGtkY=
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@@ -164,21 +156,15 @@ github.com/jmoiron/sqlx v1.2.0/go.mod h1:1FEQNm3xlJgrMD+FBdI9+xvCksHtbpVBBw5dYhB
 github.com/johannesboyne/gofakes3 v0.0.0-20200716060623-6b2b4cb092cc h1:JJPhSHowepOF2+ElJVyb9jgt5ZyBkPMkPuhS0uODSFs=
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 github.com/kevinburke/ssh_config v0.0.0-20171013211458-802051befeb5/go.mod h1:CT57kijsi8u/K/BOFA39wgDQJ9CxiF4nAY/ojJ6r6mM=
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@@ -188,14 +174,11 @@ github.com/matttproud/golang_protobuf_extensions v1.0.1/go.mod h1:D8He9yQNgCq6Z5
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 github.com/msteinert/pam v0.0.0-20190215180659-f29b9f28d6f9/go.mod h1:np1wUFZ6tyoke22qDJZY40URn9Ae51gX7ljIWXN5TJs=
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@@ -234,16 +217,13 @@ github.com/sergi/go-diff v1.0.0/go.mod h1:0CfEIISq7TuYL3j771MWULgwwjU+GofnZX9QAm
 github.com/shabbyrobe/gocovmerge v0.0.0-20180507124511-f6ea450bfb63 h1:J6qvD6rbmOil46orKqJaRPG+zTpoGlBTUdyv8ki63L0=
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 github.com/stretchr/objx v0.1.0/go.mod h1:HFkY916IF+rwdDfMAkV7OtwuqBVzrE8GR6GFx+wExME=
-github.com/stretchr/objx v0.1.1 h1:2vfRuCMp5sSVIDSqO8oNnWJq7mPa6KVP3iPIwFBuy8A=
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@@ -251,30 +231,22 @@ github.com/stretchr/testify v1.4.0 h1:2E4SXV/wtOkTonXsotYi4li6zVWxYlZuYNCXe9XRJy
 github.com/stretchr/testify v1.4.0/go.mod h1:j7eGeouHqKxXV5pUuKE4zz7dFj8WfuZ+81PSLYec5m4=
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-golang.org/x/mod v0.3.0 h1:RM4zey1++hCTbCVQfnWeKs9/IEsaBLA8vTkd0WVtmH4=
-golang.org/x/mod v0.3.0/go.mod h1:s0Qsj1ACt9ePp/hMypM3fl4fZqREWJwdYDEqhRiZZUA=
-golang.org/x/mod v0.4.2 h1:Gz96sIWK3OalVv/I/qNygP42zyoKp3xptRVCWRFEBvo=
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@@ -288,12 +260,10 @@ golang.org/x/net v0.0.0-20190503192946-f4e77d36d62c/go.mod h1:t9HGtf8HONx5eT2rtn
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-golang.org/x/net v0.0.0-20201021035429-f5854403a974 h1:IX6qOQeG5uLjB/hjjwjedwfjND0hgjPMMyO1RoIXQNI=
-golang.org/x/net v0.0.0-20201021035429-f5854403a974/go.mod h1:sp8m0HH+o8qH0wwXwYZr8TS3Oi6o0r6Gce1SSxlDquU=
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+golang.org/x/net v0.0.0-20211112202133-69e39bad7dc2/go.mod h1:9nx3DQGgdP8bBQD5qxJ1jj9UTztislL4KSBs9R2vV5Y=
 golang.org/x/oauth2 v0.0.0-20180821212333-d2e6202438be/go.mod h1:N/0e6XlmueqKjAGxoOufVs8QHGRruUQn6yWY3a++T0U=
 golang.org/x/oauth2 v0.0.0-20190226205417-e64efc72b421/go.mod h1:gOpvHmFTYa4IltrdGE7lF6nIHvwfUNPOp7c8zoXwtLw=
 golang.org/x/oauth2 v0.0.0-20190604053449-0f29369cfe45 h1:SVwTIAaPC2U/AvvLNZ2a7OVsmBpC8L5BlwK1whH3hm0=
@@ -303,9 +273,6 @@ golang.org/x/sync v0.0.0-20181108010431-42b317875d0f/go.mod h1:RxMgew5VJxzue5/jJ
 golang.org/x/sync v0.0.0-20181221193216-37e7f081c4d4/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM=
 golang.org/x/sync v0.0.0-20190227155943-e225da77a7e6/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM=
 golang.org/x/sync v0.0.0-20190423024810-112230192c58/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM=
-golang.org/x/sync v0.0.0-20201020160332-67f06af15bc9 h1:SQFwaSi55rU7vdNs9Yr0Z324VNlrF+0wMqRXT4St8ck=
-golang.org/x/sync v0.0.0-20201020160332-67f06af15bc9/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM=
-golang.org/x/sync v0.0.0-20210220032951-036812b2e83c h1:5KslGYwFpkhGh+Q16bwMP3cOontH8FOep7tGV86Y7SQ=
 golang.org/x/sync v0.0.0-20210220032951-036812b2e83c/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM=
 golang.org/x/sys v0.0.0-20180830151530-49385e6e1522/go.mod h1:STP8DvDyc/dI5b8T5hshtkjS+E42TnysNCUPdjciGhY=
 golang.org/x/sys v0.0.0-20180905080454-ebe1bf3edb33/go.mod h1:STP8DvDyc/dI5b8T5hshtkjS+E42TnysNCUPdjciGhY=
@@ -318,16 +285,9 @@ golang.org/x/sys v0.0.0-20190507160741-ecd444e8653b/go.mod h1:h1NjWce9XRLGQEsW7w
 golang.org/x/sys v0.0.0-20191005200804-aed5e4c7ecf9/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
 golang.org/x/sys v0.0.0-20191010194322-b09406accb47/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
 golang.org/x/sys v0.0.0-20191026070338-33540a1f6037/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
-golang.org/x/sys v0.0.0-20200930185726-fdedc70b468f/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
 golang.org/x/sys v0.0.0-20201119102817-f84b799fce68/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
-golang.org/x/sys v0.0.0-20210119212857-b64e53b001e4 h1:myAQVi0cGEoqQVR5POX+8RR2mrocKqNN1hmeMqhX27k=
-golang.org/x/sys v0.0.0-20210119212857-b64e53b001e4/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
-golang.org/x/sys v0.0.0-20210330210617-4fbd30eecc44/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
 golang.org/x/sys v0.0.0-20210423082822-04245dca01da/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
-golang.org/x/sys v0.0.0-20210510120138-977fb7262007 h1:gG67DSER+11cZvqIMb8S8bt0vZtiN6xWYARwirrOSfE=
-golang.org/x/sys v0.0.0-20210510120138-977fb7262007/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg=
-golang.org/x/sys v0.0.0-20210603125802-9665404d3644 h1:CA1DEQ4NdKphKeL70tvsWNdT5oFh1lOjihRcEDROi0I=
-golang.org/x/sys v0.0.0-20210603125802-9665404d3644/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg=
+golang.org/x/sys v0.0.0-20210615035016-665e8c7367d1/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg=
 golang.org/x/sys v0.0.0-20210809222454-d867a43fc93e h1:WUoyKPm6nCo1BnNUvPGnFG3T5DUVem42yDJZZ4CNxMA=
 golang.org/x/sys v0.0.0-20210809222454-d867a43fc93e/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg=
 golang.org/x/term v0.0.0-20201126162022-7de9c90e9dd1 h1:v+OssWQX+hTHEmOBgwxdZxK4zHq3yOs8F9J7mk0PY8E=
@@ -335,11 +295,9 @@ golang.org/x/term v0.0.0-20201126162022-7de9c90e9dd1/go.mod h1:bj7SfCRtBDWHUb9sn
 golang.org/x/text v0.3.0/go.mod h1:NqM8EUOU14njkJ3fqMW+pc6Ldnwhi/IjpwHt7yyuwOQ=
 golang.org/x/text v0.3.1-0.20180807135948-17ff2d5776d2/go.mod h1:NqM8EUOU14njkJ3fqMW+pc6Ldnwhi/IjpwHt7yyuwOQ=
 golang.org/x/text v0.3.2/go.mod h1:bEr9sfX3Q8Zfm5fL9x+3itogRgK3+ptLWKqgva+5dAk=
-golang.org/x/text v0.3.3 h1:cokOdA+Jmi5PJGXLlLllQSgYigAEfHXJAERHVMaCc2k=
 golang.org/x/text v0.3.3/go.mod h1:5Zoc/QRtKVWzQhOtBMvqHzDpF6irO9z98xDceosuGiQ=
 golang.org/x/text v0.3.6 h1:aRYxNxv6iGQlyVaZmk6ZgYEDa+Jg18DxebPSrd6bg1M=
 golang.org/x/text v0.3.6/go.mod h1:5Zoc/QRtKVWzQhOtBMvqHzDpF6irO9z98xDceosuGiQ=
-golang.org/x/time v0.0.0-20181108054448-85acf8d2951c h1:fqgJT0MGcGpPgpWU7VRdRjuArfcOvC4AoJmILihzhDg=
 golang.org/x/time v0.0.0-20181108054448-85acf8d2951c/go.mod h1:tRJNPiyCQ0inRvYxbN9jk5I+vvW/OXSQhTDSoE431IQ=
 golang.org/x/tools v0.0.0-20180917221912-90fa682c2a6e/go.mod h1:n7NCudcB/nEzxVGmLbDWY5pfWTLqBcC2KZ6jyYvM4mQ=
 golang.org/x/tools v0.0.0-20190114222345-bf090417da8b/go.mod h1:n7NCudcB/nEzxVGmLbDWY5pfWTLqBcC2KZ6jyYvM4mQ=
@@ -349,10 +307,6 @@ golang.org/x/tools v0.0.0-20190311212946-11955173bddd/go.mod h1:LCzVGOaR6xXOjkQ3
 golang.org/x/tools v0.0.0-20190312170243-e65039ee4138/go.mod h1:LCzVGOaR6xXOjkQ3onu1FJEFr0SW1gC7cKk1uF8kGRs=
 golang.org/x/tools v0.0.0-20190506145303-2d16b83fe98c/go.mod h1:RgjU9mgBXZiqYHBnxXauZ1Gv1EHHAz9KjViQ78xBX0Q=
 golang.org/x/tools v0.0.0-20191119224855-298f0cb1881e/go.mod h1:b+2E5dAYhXwXZwtnZ6UAqBI28+e2cm9otk0dWdXHAEo=
-golang.org/x/tools v0.1.0 h1:po9/4sTYwZU9lPhi1tOrb4hCv3qrhiQ77LZfGa2OjwY=
-golang.org/x/tools v0.1.0/go.mod h1:xkSsbof2nBLbhDlRMhhhyNLN/zl3eTqcnHD5viDpcZ0=
-golang.org/x/tools v0.1.2 h1:kRBLX7v7Af8W7Gdbbc908OJcdgtK8bOz9Uaj8/F1ACA=
-golang.org/x/tools v0.1.2/go.mod h1:o0xws9oXOQQZyjljx8fwUC0k7L1pTE6eaCbjGeHmOkk=
 golang.org/x/tools v0.1.7 h1:6j8CgantCy3yc8JGBqkDLMKWqZ0RDU2g1HVgacojGWQ=
 golang.org/x/tools v0.1.7/go.mod h1:LGqMHiF4EqQNHR1JncWGqT5BVaXmza+X+BDGol+dOxo=
 golang.org/x/xerrors v0.0.0-20190717185122-a985d3407aa7/go.mod h1:I/5z698sn9Ka8TeJc9MKroUUfqBBauWjQqLJ2OPfmY0=
@@ -375,14 +329,12 @@ google.golang.org/genproto v0.0.0-20190502173448-54afdca5d873/go.mod h1:VzzqZJRn
 google.golang.org/grpc v1.19.0/go.mod h1:mqu4LbDTu4XGKhr4mRzUsmM4RtVoemTSY81AxZiDr8c=
 google.golang.org/grpc v1.20.1 h1:Hz2g2wirWK7H0qIIhGIqRGTuMwTE8HEKFnDZZ7lm9NU=
 google.golang.org/grpc v1.20.1/go.mod h1:10oTOabMzJvdu6/UiuZezV6QK5dSlG84ov/aaiqXj38=
-gopkg.in/alecthomas/kingpin.v2 v2.2.6 h1:jMFz6MfLP0/4fUyZle81rXUoxOBFi19VUFKVDOQfozc=
 gopkg.in/alecthomas/kingpin.v2 v2.2.6/go.mod h1:FMv+mEhP44yOT+4EoQTLFTRgOQ1FBLkstjWtayDeSgw=
 gopkg.in/asn1-ber.v1 v1.0.0-20181015200546-f715ec2f112d h1:TxyelI5cVkbREznMhfzycHdkp5cLA7DpE+GKjSslYhM=
 gopkg.in/asn1-ber.v1 v1.0.0-20181015200546-f715ec2f112d/go.mod h1:cuepJuh7vyXfUyUwEgHQXw849cJrilpS5NeIjOWESAw=
 gopkg.in/check.v1 v0.0.0-20161208181325-20d25e280405/go.mod h1:Co6ibVJAznAaIkqp8huTwlJQCZ016jof/cbN4VW5Yz0=
 gopkg.in/check.v1 v1.0.0-20161208181325-20d25e280405 h1:829vOVxxusYHC+IqBtkX5mbKtsY9fheQiQn0MZRVLfQ=
 gopkg.in/check.v1 v1.0.0-20161208181325-20d25e280405/go.mod h1:Co6ibVJAznAaIkqp8huTwlJQCZ016jof/cbN4VW5Yz0=
-gopkg.in/mgo.v2 v2.0.0-20180705113604-9856a29383ce h1:xcEWjVhvbDy+nHP67nPDDpbYrY+ILlfndk4bRioVHaU=
 gopkg.in/mgo.v2 v2.0.0-20180705113604-9856a29383ce/go.mod h1:yeKp02qBN3iKW1OzL3MGk2IdtZzaj7SFntXj72NppTA=
 gopkg.in/square/go-jose.v2 v2.3.1 h1:SK5KegNXmKmqE342YYN2qPHEnUYeoMiXXl1poUlI+o4=
 gopkg.in/square/go-jose.v2 v2.3.1/go.mod h1:M9dMgbHiYLoDGQrXy7OpJDJWiKiU//h+vD76mk0e1AI=
@@ -396,7 +348,6 @@ gopkg.in/warnings.v0 v0.1.2 h1:wFXVbFY8DY5/xOe1ECiWdKCzZlxgshcYVNkBHstARME=
 gopkg.in/warnings.v0 v0.1.2/go.mod h1:jksf8JmL6Qr/oQM2OXTHunEvvTAsrWBLb6OOjuVWRNI=
 honnef.co/go/tools v0.0.0-20190102054323-c2f93a96b099/go.mod h1:rf3lG4BRIbNafJWhAfAdb/ePZxsR/4RtNHQocxwk9r4=
 honnef.co/go/tools v0.0.0-20190106161140-3f1c8253044a/go.mod h1:rf3lG4BRIbNafJWhAfAdb/ePZxsR/4RtNHQocxwk9r4=
-honnef.co/go/tools v0.0.0-20190418001031-e561f6794a2a h1:LJwr7TCTghdatWv40WobzlKXc9c4s8oGa7QKJUtHhWA=
 honnef.co/go/tools v0.0.0-20190418001031-e561f6794a2a/go.mod h1:rf3lG4BRIbNafJWhAfAdb/ePZxsR/4RtNHQocxwk9r4=
 rsc.io/getopt v0.0.0-20170811000552-20be20937449 h1:UukjJOsjQH0DIuyyrcod6CXHS6cdaMMuJmrt+SN1j4A=
 rsc.io/getopt v0.0.0-20170811000552-20be20937449/go.mod h1:dhCdeqAxkyt5u3/sKRkUXuHaMXUu1Pt13GTQAM2xnig=

diff --git a/lib/config/config.default.yml b/lib/config/config.default.yml
index 310191517552e3fab0e15408decde47d54f5e727..a84dc5d31673b58b152645f3b73f3efa514ea767 100644 (file)
--- a/lib/config/config.default.yml
+++ b/lib/config/config.default.yml
@@ -1362,7 +1362,7 @@ Clusters:
           AccessKeyID: aaaaa
           SecretAccessKey: aaaaa
           Endpoint: ""
-          Region: us-east-1a
+          Region: us-east-1
           Bucket: aaaaa
           LocationConstraint: false
           V2Signature: false

diff --git a/lib/config/generated_config.go b/lib/config/generated_config.go
index 0532d83bb3749245495126e0a3333702a6d19f9c..567ac30a9b7d855cfabdc10374dcf55b8f9694c7 100644 (file)
--- a/lib/config/generated_config.go
+++ b/lib/config/generated_config.go
@@ -1368,7 +1368,7 @@ Clusters:
           AccessKeyID: aaaaa
           SecretAccessKey: aaaaa
           Endpoint: ""
-          Region: us-east-1a
+          Region: us-east-1
           Bucket: aaaaa
           LocationConstraint: false
           V2Signature: false

diff --git a/lib/controller/localdb/container_gateway_test.go b/lib/controller/localdb/container_gateway_test.go
index 2a77357677b3d7f064832d471257866ef356b07a..70037cc501401375ee107d8e243f21e8f15c3cb5 100644 (file)
--- a/lib/controller/localdb/container_gateway_test.go
+++ b/lib/controller/localdb/container_gateway_test.go
@@ -210,10 +210,9 @@ func (s *ContainerGatewaySuite) TestConnect(c *check.C) {
                // Receive binary
                _, err = io.ReadFull(sshconn.Conn, buf[:4])
                c.Check(err, check.IsNil)
-               c.Check(buf[:4], check.DeepEquals, []byte{0, 0, 1, 0xfc})
 
                // If we can get this far into an SSH handshake...
-               c.Log("success, tunnel is working")
+               c.Logf("was able to read %x -- success, tunnel is working", buf[:4])
        }()
        select {
        case <-done:

diff --git a/sdk/java-v2/src/main/java/org/arvados/client/api/model/Group.java b/sdk/java-v2/src/main/java/org/arvados/client/api/model/Group.java
index e9fbdb744d95b9ff2ac17261caf6de8bbffbedfb..6482215b1c29140e6f99d51a43c1b319f470301c 100644 (file)
--- a/sdk/java-v2/src/main/java/org/arvados/client/api/model/Group.java
+++ b/sdk/java-v2/src/main/java/org/arvados/client/api/model/Group.java
@@ -28,7 +28,7 @@ public class Group extends Item {
     private String groupClass;
     @JsonProperty("description")
     private String description;
-    @JsonProperty("writable_by")
+    @JsonProperty(value = "writable_by", access = JsonProperty.Access.WRITE_ONLY)
     private List<String> writableBy;
     @JsonProperty("delete_at")
     private LocalDateTime deleteAt;

diff --git a/sdk/java-v2/src/main/java/org/arvados/client/api/model/Link.java b/sdk/java-v2/src/main/java/org/arvados/client/api/model/Link.java
index a24f02a017473aeba273aa895f867801de9f55b9..1d1a20fc762b94ed95877e1d9106cfc1e986f530 100644 (file)
--- a/sdk/java-v2/src/main/java/org/arvados/client/api/model/Link.java
+++ b/sdk/java-v2/src/main/java/org/arvados/client/api/model/Link.java
@@ -15,15 +15,19 @@ import com.fasterxml.jackson.annotation.JsonPropertyOrder;
 
 @JsonInclude(JsonInclude.Include.NON_NULL)
 @JsonIgnoreProperties(ignoreUnknown = true)
-@JsonPropertyOrder({ "name", "head_kind", "head_uuid", "link_class" })
+@JsonPropertyOrder({"name", "head_kind", "head_uuid", "link_class"})
 public class Link extends Item {
 
     @JsonProperty("name")
     private String name;
-    @JsonProperty("head_kind")
+    @JsonProperty(value = "head_kind", access = JsonProperty.Access.WRITE_ONLY)
     private String headKind;
     @JsonProperty("head_uuid")
     private String headUuid;
+    @JsonProperty("tail_uuid")
+    private String tailUuid;
+    @JsonProperty(value = "tail_kind", access = JsonProperty.Access.WRITE_ONLY)
+    private String tailKind;
     @JsonProperty("link_class")
     private String linkClass;
 
@@ -39,6 +43,14 @@ public class Link extends Item {
         return headUuid;
     }
 
+    public String getTailUuid() {
+        return tailUuid;
+    }
+
+    public String getTailKind() {
+        return tailKind;
+    }
+
     public String getLinkClass() {
         return linkClass;
     }
@@ -55,6 +67,14 @@ public class Link extends Item {
         this.headUuid = headUuid;
     }
 
+    public void setTailUuid(String tailUuid) {
+        this.tailUuid = tailUuid;
+    }
+
+    public void setTailKind(String tailKind) {
+        this.tailKind = tailKind;
+    }
+
     public void setLinkClass(String linkClass) {
         this.linkClass = linkClass;
     }

diff --git a/sdk/java-v2/src/test/java/org/arvados/client/api/client/LinkApiClientTest.java b/sdk/java-v2/src/test/java/org/arvados/client/api/client/LinkApiClientTest.java
new file mode 100644 (file)
index 0000000..f051b56
--- /dev/null
+++ b/sdk/java-v2/src/test/java/org/arvados/client/api/client/LinkApiClientTest.java
@@ -0,0 +1,97 @@
+/*
+ * Copyright (C) The Arvados Authors. All rights reserved.
+ *
+ * SPDX-License-Identifier: AGPL-3.0 OR Apache-2.0
+ *
+ */
+
+package org.arvados.client.api.client;
+
+import okhttp3.mockwebserver.RecordedRequest;
+import org.arvados.client.api.model.Link;
+import org.arvados.client.api.model.LinkList;
+import org.arvados.client.test.utils.ArvadosClientMockedWebServerTest;
+import org.arvados.client.test.utils.RequestMethod;
+import org.junit.Test;
+
+import static org.arvados.client.test.utils.ApiClientTestUtils.assertAuthorizationHeader;
+import static org.arvados.client.test.utils.ApiClientTestUtils.assertRequestMethod;
+import static org.arvados.client.test.utils.ApiClientTestUtils.assertRequestPath;
+import static org.arvados.client.test.utils.ApiClientTestUtils.getResponse;
+import static org.assertj.core.api.Assertions.assertThat;
+import static org.junit.Assert.assertEquals;
+
+public class LinkApiClientTest extends ArvadosClientMockedWebServerTest {
+
+    private static final String RESOURCE = "links";
+
+    private final LinksApiClient client = new LinksApiClient(CONFIG);
+
+    @Test
+    public void listLinks() throws Exception {
+        // given
+        server.enqueue(getResponse("links-list"));
+
+        // when
+        LinkList actual = client.list();
+
+        // then
+        RecordedRequest request = server.takeRequest();
+        assertAuthorizationHeader(request);
+        assertRequestPath(request, RESOURCE);
+        assertRequestMethod(request, RequestMethod.GET);
+        assertThat(actual.getItemsAvailable()).isEqualTo(2);
+    }
+
+    @Test
+    public void getLink() throws Exception {
+        // given
+        server.enqueue(getResponse("links-get"));
+
+        String uuid = "arkau-o0j2j-huxuaxbi46s1yml";
+
+        // when
+        Link actual = client.get(uuid);
+
+        // then
+        RecordedRequest request = server.takeRequest();
+        assertAuthorizationHeader(request);
+        assertRequestPath(request, RESOURCE + "/" + uuid);
+        assertRequestMethod(request, RequestMethod.GET);
+        assertEquals(actual.getUuid(), uuid);
+        assertEquals(actual.getName(), "can_read");
+        assertEquals(actual.getHeadKind(), "arvados#group");
+        assertEquals(actual.getHeadUuid(), "arkau-j7d0g-fcedae2076pw56h");
+        assertEquals(actual.getTailUuid(), "ardev-tpzed-n3kzq4fvoks3uw4");
+        assertEquals(actual.getTailKind(), "arvados#user");
+        assertEquals(actual.getLinkClass(), "permission");
+    }
+
+    @Test
+    public void createLink() throws Exception {
+        // given
+        server.enqueue(getResponse("links-create"));
+
+        String name = "Star Link";
+
+        Link collection = new Link();
+        collection.setName(name);
+
+        // when
+        Link actual = client.create(collection);
+
+        // then
+        RecordedRequest request = server.takeRequest();
+        assertAuthorizationHeader(request);
+        assertRequestPath(request, RESOURCE);
+        assertRequestMethod(request, RequestMethod.POST);
+        assertThat(actual.getName()).isEqualTo(name);
+        assertEquals(actual.getName(), name);
+        assertEquals(actual.getUuid(), "arkau-o0j2j-huxuaxbi46s1yml");
+        assertEquals(actual.getHeadKind(), "arvados#group");
+        assertEquals(actual.getHeadUuid(), "arkau-j7d0g-fcedae2076pw56h");
+        assertEquals(actual.getTailUuid(), "ardev-tpzed-n3kzq4fvoks3uw4");
+        assertEquals(actual.getTailKind(), "arvados#user");
+        assertEquals(actual.getLinkClass(), "star");
+    }
+}
\ No newline at end of file

diff --git a/sdk/java-v2/src/test/resources/org/arvados/client/api/client/links-create.json b/sdk/java-v2/src/test/resources/org/arvados/client/api/client/links-create.json
new file mode 100644 (file)
index 0000000..0664d88
--- /dev/null
+++ b/sdk/java-v2/src/test/resources/org/arvados/client/api/client/links-create.json
@@ -0,0 +1,18 @@
+{
+  "href": "/links/arkau-o0j2j-huxuaxbi46s1yml",
+  "kind": "arvados#link",
+  "etag": "zw1rlnbig0kpm9btw8us3pn9",
+  "uuid": "arkau-o0j2j-huxuaxbi46s1yml",
+  "owner_uuid": "arkau-tpzed-000000000000000",
+  "created_at": "2021-11-30T08:45:04.373354745Z",
+  "modified_by_client_uuid": null,
+  "modified_by_user_uuid": "ardev-tpzed-n3kzq4fvoks3uw4",
+  "modified_at": "2021-11-30T08:45:04.374489000Z",
+  "tail_uuid": "ardev-tpzed-n3kzq4fvoks3uw4",
+  "link_class": "star",
+  "name": "Star Link",
+  "head_uuid": "arkau-j7d0g-fcedae2076pw56h",
+  "head_kind": "arvados#group",
+  "tail_kind": "arvados#user",
+  "properties": {}
+}
\ No newline at end of file

diff --git a/sdk/java-v2/src/test/resources/org/arvados/client/api/client/links-get.json b/sdk/java-v2/src/test/resources/org/arvados/client/api/client/links-get.json
new file mode 100644 (file)
index 0000000..25f63bd
--- /dev/null
+++ b/sdk/java-v2/src/test/resources/org/arvados/client/api/client/links-get.json
@@ -0,0 +1,18 @@
+{
+  "href": "/links/arkau-o0j2j-huxuaxbi46s1yml",
+  "kind": "arvados#link",
+  "etag": "zw1rlnbig0kpm9btw8us3pn9",
+  "uuid": "arkau-o0j2j-huxuaxbi46s1yml",
+  "owner_uuid": "arkau-tpzed-000000000000000",
+  "created_at": "2021-11-30T08:45:04.373354745Z",
+  "modified_by_client_uuid": null,
+  "modified_by_user_uuid": "ardev-tpzed-n3kzq4fvoks3uw4",
+  "modified_at": "2021-11-30T08:45:04.374489000Z",
+  "tail_uuid": "ardev-tpzed-n3kzq4fvoks3uw4",
+  "link_class": "permission",
+  "name": "can_read",
+  "head_uuid": "arkau-j7d0g-fcedae2076pw56h",
+  "head_kind": "arvados#group",
+  "tail_kind": "arvados#user",
+  "properties": {}
+}
\ No newline at end of file

diff --git a/sdk/java-v2/src/test/resources/org/arvados/client/api/client/links-list.json b/sdk/java-v2/src/test/resources/org/arvados/client/api/client/links-list.json
new file mode 100644 (file)
index 0000000..e720ecf
--- /dev/null
+++ b/sdk/java-v2/src/test/resources/org/arvados/client/api/client/links-list.json
@@ -0,0 +1,46 @@
+{
+  "kind": "arvados#linkList",
+  "etag": "",
+  "self_link": "",
+  "offset": 0,
+  "limit": 100,
+  "items": [
+    {
+      "href": "/links/arkau-o0j2j-x2b4rdadxs2fizn",
+      "kind": "arvados#link",
+      "etag": "dkhtr9tvp9zfy0d90xjn7w1t7",
+      "uuid": "arkau-o0j2j-x2b4rdadxs2fizn",
+      "owner_uuid": "arkau-j7d0g-publicfavorites",
+      "created_at": "2021-10-27T12:00:06.607794000Z",
+      "modified_by_client_uuid": null,
+      "modified_by_user_uuid": "arlog-tpzed-fyiau9qwo7ytntu",
+      "modified_at": "2021-10-27T12:00:06.609840000Z",
+      "tail_uuid": "arkau-j7d0g-publicfavorites",
+      "link_class": "star",
+      "name": "pRED Data Commons Service - Open access",
+      "head_uuid": "arkau-j7d0g-sfhw8b1uson0hwh",
+      "head_kind": "arvados#group",
+      "tail_kind": "arvados#group",
+      "properties": {}
+    },
+    {
+      "href": "/links/arkau-o0j2j-r5am4lz9gnu488k",
+      "kind": "arvados#link",
+      "etag": "9nt0c2xn5oz1jzjzawlycmehz",
+      "uuid": "arkau-o0j2j-r5am4lz9gnu488k",
+      "owner_uuid": "arkau-j7d0g-publicfavorites",
+      "created_at": "2021-06-23T14:58:06.189520000Z",
+      "modified_by_client_uuid": null,
+      "modified_by_user_uuid": "arlog-tpzed-xzjyeljl6co7vlz",
+      "modified_at": "2021-06-23T14:58:06.196208000Z",
+      "tail_uuid": "arkau-j7d0g-publicfavorites",
+      "link_class": "star",
+      "name": "Open Targets Genetics",
+      "head_uuid": "arkau-j7d0g-pj5wysmpy5wn8yo",
+      "head_kind": "arvados#group",
+      "tail_kind": "arvados#group",
+      "properties": {}
+    }
+  ],
+  "items_available": 2
+}
\ No newline at end of file

diff --git a/services/api/lib/update_permissions.rb b/services/api/lib/update_permissions.rb
index 23e60c8ed94733db647e3aafd911bbd272407646..b7e5476404869f6a89603302eafe828397acd1c5 100644 (file)
--- a/services/api/lib/update_permissions.rb
+++ b/services/api/lib/update_permissions.rb
@@ -118,6 +118,10 @@ as select * from compute_permission_subgraph($1, $2, $3, $4)
 
     ActiveRecord::Base.connection.exec_query "SET LOCAL enable_mergejoin to true;"
 
+    # Now that we have recomputed a set of permissions, delete any
+    # rows from the materialized_permissions table where (target_uuid,
+    # user_uuid) is not present or has perm_level=0 in the recomputed
+    # set.
     ActiveRecord::Base.connection.exec_delete %{
 delete from #{PERMISSION_VIEW} where
   target_uuid in (select target_uuid from #{temptable_perms}) and
@@ -128,10 +132,18 @@ delete from #{PERMISSION_VIEW} where
 },
                                               "update_permissions.delete"
 
+    # Now insert-or-update permissions in the recomputed set.  The
+    # WHERE clause is important to avoid redundantly updating rows
+    # that haven't actually changed.
     ActiveRecord::Base.connection.exec_query %{
 insert into #{PERMISSION_VIEW} (user_uuid, target_uuid, perm_level, traverse_owned)
   select user_uuid, target_uuid, val as perm_level, traverse_owned from #{temptable_perms} where val>0
-on conflict (user_uuid, target_uuid) do update set perm_level=EXCLUDED.perm_level, traverse_owned=EXCLUDED.traverse_owned;
+on conflict (user_uuid, target_uuid) do update
+set perm_level=EXCLUDED.perm_level, traverse_owned=EXCLUDED.traverse_owned
+where #{PERMISSION_VIEW}.user_uuid=EXCLUDED.user_uuid and
+      #{PERMISSION_VIEW}.target_uuid=EXCLUDED.target_uuid and
+       (#{PERMISSION_VIEW}.perm_level != EXCLUDED.perm_level or
+        #{PERMISSION_VIEW}.traverse_owned != EXCLUDED.traverse_owned);
 },
                                              "update_permissions.insert"