[ARVADOS] updated: 2.1.0-124-g89b17acc9

Tue Mar 23 20:29:41 UTC 2021

Summary of changes:
 doc/_config.yml                                    |  1 +
 ...eep-measuring-deduplication.html.textile.liquid | 80 ++++++++++++++++++++++
 lib/deduplicationreport/report.go                  |  2 +-
 3 files changed, 82 insertions(+), 1 deletion(-)
 create mode 100644 doc/admin/keep-measuring-deduplication.html.textile.liquid

       via  89b17acc99123e3b247a2c9edc0a74054b4e1398 (commit)
       via  cc524d1012ec16c90879e81cfb3b6f693f7d93f2 (commit)
      from  c735c1bbbb148c5ced9bad0b4b1894294024c84a (commit)

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commit 89b17acc99123e3b247a2c9edc0a74054b4e1398
Author: Ward Vandewege <ward at curii.com>
Date:   Tue Mar 23 16:27:10 2021 -0400

    17495: fix typo.
    
    Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward at curii.com>

diff --git a/doc/admin/keep-measuring-deduplication.html.textile.liquid b/doc/admin/keep-measuring-deduplication.html.textile.liquid
index d4f8f2305..76b477d09 100644
--- a/doc/admin/keep-measuring-deduplication.html.textile.liquid
+++ b/doc/admin/keep-measuring-deduplication.html.textile.liquid
@@ -10,7 +10,7 @@ Copyright (C) The Arvados Authors. All rights reserved.
 SPDX-License-Identifier: CC-BY-SA-3.0
 {% endcomment %}
 
-The @arvados-client@ tool can be used to generate a deduplciation report across an arbitrary number of collections. It can be installed from packages (@apt install arvados-client@ or @yum install arvados-client@).
+The @arvados-client@ tool can be used to generate a deduplication report across an arbitrary number of collections. It can be installed from packages (@apt install arvados-client@ or @yum install arvados-client@).
 
 h2(#syntax). Syntax
 

commit cc524d1012ec16c90879e81cfb3b6f693f7d93f2
Author: Ward Vandewege <ward at curii.com>
Date:   Tue Mar 23 14:49:46 2021 -0400

    17495: document the deduplication report. Fix example invocation in the
           cli help.
    
    Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward at curii.com>

diff --git a/doc/_config.yml b/doc/_config.yml
index 50a27de93..ebb70fa15 100644
--- a/doc/_config.yml
+++ b/doc/_config.yml
@@ -189,6 +189,7 @@ navbar:
       - admin/workbench2-vocabulary.html.textile.liquid
       - admin/storage-classes.html.textile.liquid
       - admin/keep-recovering-data.html.textile.liquid
+      - admin/keep-measuring-deduplication.html.textile.liquid
     - Cloud:
       - admin/spot-instances.html.textile.liquid
       - admin/cloudtest.html.textile.liquid
diff --git a/doc/admin/keep-measuring-deduplication.html.textile.liquid b/doc/admin/keep-measuring-deduplication.html.textile.liquid
new file mode 100644
index 000000000..d4f8f2305
--- /dev/null
+++ b/doc/admin/keep-measuring-deduplication.html.textile.liquid
@@ -0,0 +1,80 @@
+---
+layout: default
+navsection: admin
+title: "Measuring deduplication"
+...
+
+{% comment %}
+Copyright (C) The Arvados Authors. All rights reserved.
+
+SPDX-License-Identifier: CC-BY-SA-3.0
+{% endcomment %}
+
+The @arvados-client@ tool can be used to generate a deduplciation report across an arbitrary number of collections. It can be installed from packages (@apt install arvados-client@ or @yum install arvados-client@).
+
+h2(#syntax). Syntax
+
+<notextile>
+<pre><code>~$ <span class="userinput">arvados-client deduplication-report -h</span>
+Usage:
+  arvados-client deduplication-report [options ...] <collection-uuid> <collection-uuid> ...
+
+  arvados-client deduplication-report [options ...] <collection-pdh>,<collection_uuid> \
+     <collection-pdh>,<collection_uuid> ...
+
+  This program analyzes the overlap in blocks used by 2 or more collections. It
+  prints a deduplication report that shows the nominal space used by the
+  collections, as well as the actual size and the amount of space that is saved
+  by Keep's deduplication.
+
+  The list of collections may be provided in two ways. A list of collection
+  uuids is sufficient. Alternatively, the PDH for each collection may also be
+  provided. This is will greatly speed up operation when the list contains
+  multiple collections with the same PDH.
+
+  Exit status will be zero if there were no errors generating the report.
+
+Example:
+
+  Use the 'arv' and 'jq' commands to get the list of the 100
+  largest collections and generate the deduplication report:
+
+  arv collection list --order 'file_size_total desc' --limit 100 | \
+    jq -r '.items[] | [.portable_data_hash,.uuid] |@csv' | \
+    sed -e 's/"//g'|tr '\n' ' ' | \
+    xargs arvados-client deduplication-report
+
+Options:
+  -config file
+      Site configuration file (default may be overridden by setting an ARVADOS_CONFIG environment variable) (default "/etc/arvados/config.yml")
+  -log-level string
+      logging level (debug, info, ...) (default "info")
+</code>
+</pre>
+</notextile>
+
+The usual environment variables (@ARVADOS_API_HOST@ and @ARVADOS_API_TOKEN@) need to be set for the deduplication report to be be generated. To get cluster-wide results, an admin token will need to be supplied. Users can also run this report, but only collections their token is able to read will be included.
+
+Example output (with uuids and portable data hashes obscured) from a small Arvados cluster:
+
+<notextile>
+<pre><code>~$ <span class="userinput">arv collection list --order 'file_size_total desc' --limit 10 | jq -r '.items[] | [.portable_data_hash,.uuid] |@csv' |sed -e 's/"//g'|tr '\n' ' ' |xargs arvados-client deduplication-report</span>
+Collection _____-_____-_______________: pdh ________________________________+5003343; nominal size 7382073267640 (6.7 TiB); file count 2796
+Collection _____-_____-_______________: pdh ________________________________+4961919; nominal size 6989909625775 (6.4 TiB); file count 5592
+Collection _____-_____-_______________: pdh ________________________________+1903643; nominal size 2677933564052 (2.4 TiB); file count 2796
+Collection _____-_____-_______________: pdh ________________________________+1903643; nominal size 2677933564052 (2.4 TiB); file count 2796
+Collection _____-_____-_______________: pdh ________________________________+137710; nominal size 191858151583 (179 GiB); file count 201
+Collection _____-_____-_______________: pdh ________________________________+137636; nominal size 191858101962 (179 GiB); file count 200
+Collection _____-_____-_______________: pdh ________________________________+135350; nominal size 191715427388 (178 GiB); file count 201
+Collection _____-_____-_______________: pdh ________________________________+135276; nominal size 191715384167 (178 GiB); file count 200
+Collection _____-_____-_______________: pdh ________________________________+135350; nominal size 191707276684 (178 GiB); file count 201
+Collection _____-_____-_______________: pdh ________________________________+135276; nominal size 191707233463 (178 GiB); file count 200
+
+Collections:                              10
+Nominal size of stored data:  20878411596766 bytes (19 TiB)
+Actual size of stored data:   17053104444050 bytes (16 TiB)
+Saved by Keep deduplication:   3825307152716 bytes (3.5 TiB)
+
+</code>
+</pre>
+</notextile>
diff --git a/lib/deduplicationreport/report.go b/lib/deduplicationreport/report.go
index 8bb3fc4e5..8759df080 100644
--- a/lib/deduplicationreport/report.go
+++ b/lib/deduplicationreport/report.go
@@ -60,7 +60,7 @@ Example:
 
   arv collection list --order 'file_size_total desc' --limit 100 | \
     jq -r '.items[] | [.portable_data_hash,.uuid] |@csv' | \
-    tail -n+2 |sed -e 's/"//g'|tr '\n' ' ' | \
+    sed -e 's/"//g'|tr '\n' ' ' | \
     xargs %s
 
 Options:

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