-# Begin by installing the "Arvados Python SDK":{{site.baseurl}}/sdk/python/sdk-python.html on the system from which you will upload the data (such as your workstation, or a server containing data from your sequencer). This will install the Arvados file upload tool, @arv-put@. Alternately, you can log into an Arvados VM (instructions for "Unix":{{site.baseurl}}/user/getting_started/ssh-access-unix.html#login or "Windows":{{site.baseurl}}/user/getting_started/ssh-access-windows.html#login).
-# On system from which you will upload data, configure the environment with the Arvados instance host name and authentication token as decribed in "Getting an API token.":{{site.baseurl}}/user/reference/api-tokens.html (If you are logged into an Arvados VM, you can skip this step.)
-# Download the following example file. (If you are uploading your own data, you can skip this step.)
-
-~$ curl -o var-GS000016015-ASM.tsv.bz2 'https://warehouse.pgp-hms.org/warehouse/f815ec01d5d2f11cb12874ab2ed50daa+234+K@ant/var-GS000016015-ASM.tsv.bz2'
- % Total % Received % Xferd Average Speed Time Time Time Current
- Dload Upload Total Spent Left Speed
-100 216M 100 216M 0 0 10.0M 0 0:00:21 0:00:21 --:--:-- 9361k
-
-
-# Now upload the file to Keep using @arv-put@:
+h2(#upload-using-command). Upload using command line tool
+
+{% include 'tutorial_expectations' %}
+
+To upload a file to Keep using @arv-put@:
~$ arv-put var-GS000016015-ASM.tsv.bz2
216M / 216M 100.0%
-c1bad4b39ca5a924e481008009d94e32+210
+Collection saved as ...
+qr1hi-4zz18-xxxxxxxxxxxxxxx
-* The output value @c1bad4b39ca5a924e481008009d94e32+210@ is the Arvados collection locator that uniquely describes this file.
-Now go to the workbench collections page:
https://{{ site.arvados_workbench_host }}/collections. Your newly uploaded collection should appear near the top, with the value in the *uuid* column matching the Arvados collection locator that was printed by @arv-put@. Click on the *
Show* button to go to the workbench page for your collection. Alternately, you can paste the Arvados collection locator into the *Search* box of the collections page to find your collection.
+The output value @qr1hi-4zz18-xxxxxxxxxxxxxxx@ is the uuid of the Arvados collection created.
-The show collection page allows you to view the contents of the collection, download files from the collection, and set sharing options. To put your collection into a project, click on
Add to project.... This will open a modal dialog allowing you to select a destination project for your collection.
+Note: The file used in this example is a freely available TSV file containing variant annotations from the "Personal Genome Project (PGP)":http://www.pgp-hms.org participant "hu599905":https://my.pgp-hms.org/profile/hu599905), downloadable "here":https://warehouse.pgp-hms.org/warehouse/f815ec01d5d2f11cb12874ab2ed50daa+234+K@ant/var-GS000016015-ASM.tsv.bz2. Alternatively, you can replace @var-GS000016015-ASM.tsv.bz2@ with the name of any file you have locally, or you could get the TSV file by "downloading it from Keep.":{{site.baseurl}}/user/tutorials/tutorial-keep-get.html
-notextile.