Release candidate November 1st, 2017 (qiita-spots#2373)

* replace printable for try/except utf-8

* add sleeps for tests

* moving wait_for_prep_information_job

* just leaving the changes on this pr

* Fixing tests

* Reverting changes

* dist: precise

* addressing @josenavas comments

* fix-2212

* Adding branch description to Contributing (qiita-spots#2256)

* Adding branch description

* Adding spaces

* Adding timeline

* upgrading software

* mv r_client to qiita

* from redis import Redis

* rm moi and ipython

* Move qiita_db/private.py -> qiita_ware/private_plugin.py

* _system_call as system_call

* flake8

* rm create_raw_data

* Transferring VAMPS submission to internal job

* rm other unnecessary files

* addressing @josenavas comment

* Fixing merge conflicts

* Adding tests to private plugin

* rm wrapper.py

* Removing import

* Fixing import

* Modifying GUI to use the plugin

* moving qiita pet in .travis.yml

* Transfer submit to vamps (qiita-spots#2265)

* Move qiita_db/private.py -> qiita_ware/private_plugin.py

* Transferring VAMPS submission to internal job

* Fixing import

* some other .travis.yml fixes

* addressing @josenavas comment

* Adding success test

* adding some methods

* flake8

* Transfer copy raw data (qiita-spots#2267)

* Move qiita_db/private.py -> qiita_ware/private_plugin.py

* Transferring VAMPS submission to internal job

* Fixing merge conflicts

* Adding tests to private plugin

* Removing import

* Fixing import

* Modifying GUI to use the plugin

* Adding success test

* change imports

* adding delete_artifact and create_sample_template

* fixing errors and gui

* fix delete error

* ENH: Make jobs list modal

With some recent changes to the position of the navigation bar, the
header of the jobs list is cut from screen. With this patch in place,
the jobs list will be shown as a modal window, so that won't be a
problem anymore.

* Transfer update delete templates (qiita-spots#2274)

* Moving update_sample_template

* Transfer update_sample_template

* Porting update prep template

* Moving delete sample or column

* Removing tests

* Removing dispatchable and its tests

* Updating interface to use the new functionality'

* Adapting the prep template GUI

* Submitting jobs

* Fixing tests

* Removing qiita_ware/context.py

* flake8ing

* Fixing _system_call

* Safeguarding the call to rollback

* Unmasking more errors

* Forcing different connections on different processes

* Moving job completion to internal plugin structure

* Removing unused code

* Forcing the creation of a new transaction on the jobs

* Fixing tests

* forcing the commit

* Fixing all tests

* Addressing @antgonza's comments

* Addressing @antgonza's comment

* Addressing @ElDeveloper's comments

* BUG: Fix job updates

* Fixing the redis DB (qiita-spots#2277)

* Fixing the redis DB

* Addressing @antgonza's comments

* redbiom install

* redbiom to install_requires

* mv moi-ws to qiita_websocket

* init commit

* addressing @wasade comment

* rm webdis.log

* cleaning code for initial review

* install latest redbiom

* fix test

* ENH: Change phrasing of upload text (qiita-spots#2281)

* ENH: Change phrasing of upload text

As per a user's request.

* Fix typo in docs

Fixes qiita-spots#2259

* addressing @wasade comments and adding other tests

* flake8

* addressing @josenavas comments

* fix qiita-spots#2258

* fix qiita-spots#2258

* fix qiita-spots#858 (qiita-spots#2286)

* addressing @ElDeveloper and @josenavas comments

* @ElDeveloper :|

* redbiom now adds per sample studies to analysis

* jobs-list-as-modal

* addresssing @josenavas comments

* rm () from update_processing_job_data

* add prints to review errors

* rm prints

* Fix 2190 (qiita-spots#2292)

* Adding patch to add the 'name' parameter to all validate commands

* Adding the parameter 'name' automatically and adding a test for it

* Removing extra blank line

* Adding dflt value to artifact name

* Edited the wrong file

* Adding user defined name at creation time

* Fixing test

* add is_from_analysis to artifact_handlers (qiita-spots#2293)

* add is_from_analysis to artifact_handlers

* fix test_post_metadata

* fix error

* WIP: rm sudo from travis

* adding sed for config file

* fix sed

* rm &

* cat redis.conf

* using local redis.conf

* # protected-mode yes

* # supervised no

* redis-server --port 7777 &

* Fix 1293 (qiita-spots#2291)

* fix qiita-spots#1293

* flake8

* fix errors

* addressing @ElDeveloper comments

* rm redis.conf

* fix awaiting_approval list bug

* Fix qiita-spots#2276 (qiita-spots#2294)

* Fix qiita-spots#2276

* Factoring out generate nginx directory file list

* Factoring out the nginx file list writing

* Factoring out generating the file list of an artifact

* Factoring out the header setting

* Addressing @antgonza's comment

* Addressing @wasade's comments

* Fixing patch

* fix error

* Fixing failing test

* fix qiita-spots#2214

* addressing @josenavas comment

* fix qiita-spots#2209

* fix qiita-spots#2331

* fix qiita-spots#2326 (qiita-spots#2328)

* fix qiita-spots#2326

* addressing @ElDeveloper comment

* fix qiita-spots#2226 (qiita-spots#2330)

* fix qiita-spots#2226

* addressing @ElDeveloper comment

* fix qiita-spots#2336

* fix qiita-spots#2316

* Fixes 2269

* addressing @josenavas comments

* Fixes 2038 (qiita-spots#2349)

* fixes qiita-spots#2038

* Adding test

* Trying to debug

* Checking value

* More debugging

* Undo changes

* Fixing failure

* fix qiita-spots#2333

* addressing @josenavas

* fixes qiita-spots#2245 (qiita-spots#2350)

* fixes qiita-spots#2245

* Addressing @antgonza's comments

* Fixing test

* Fixing Qiita installation (qiita-spots#2362)

* Sync-ing with master (qiita-spots#2367)

* fix calls to system_call and ebi submissions

* fixing errors

* fix if state == submitting:

* just raise error

* EBISubmissionError -> ComputeError

* fix qiita-spots#2084 (qiita-spots#2365)

* fix qiita-spots#2125 (qiita-spots#2366)

* fix qiita-spots#2125

* fix error

* fix qiita-spots#2364

* fix qiita-spots#1812

* add tests

* flake8

* populating ProcessingJob.create True

* fix more errors

* addressing comments from @josenavas and @stephanieorch

* mv ProcessingJob.create True around

* Partial qiita-spots#2237 (qiita-spots#2368)

* fix calls to system_call and ebi submissions

* fixing errors

* fix if state == submitting:

* just raise error

* EBISubmissionError -> ComputeError

* Sorting values

* Case insensitive sorting

* Addressing @ElDeveloper's comments

* fix-1591 (qiita-spots#2370)

* fix-1591

* removing warning ATTN @josenavas, fix tests

* addressing @ElDeveloper and @josenavas comments

* Fix 2230 (qiita-spots#2372)

* fix calls to system_call and ebi submissions

* fixing errors

* fix if state == submitting:

* just raise error

* EBISubmissionError -> ComputeError

* Fix qiita-spots#2230 solved using modal in order to prevent large file download

* Function moved into in order to keep order. Some details fixed.

* addressing @wasade and @ElDeveloper comments

* fixing errors

* fix GUI and erros

* addressing @ElDeveloper comments

* rm artifacts from parameters listing

* fix flake8

* fix ilike quote params

* addressing @josenavas comment and adding test for job without children

* fix errors

* addressing @josenavas comment

* Fixing network labels (qiita-spots#2376)

* Fixing network labels

* Fixing error

* Update redbiom.html

* Update redbiom.html

* Update redbiom.html

* Patch 61 - transfer all parameters to str (qiita-spots#2379)

* Patch 61 - transfer all parameters to str

* Fixing errors

* rm lower from redbiom

* fixing smal details and adding emp_release1

* fixing

Merge pull request qiita-spots#2345 from biocore/fix-ebi-1012

fix calls to system_call and ebi submissions

Merge pull request qiita-spots#2249 from biocore/release-candidate

[DO NOT MERGE] August 24th Release

Merge pull request qiita-spots#1433 from josenavas/version_0.2.0

REL: change versions to 0.2.0

Merge pull request qiita-spots#1138 from ElDeveloper/alpha-0.1-release

REL: Final fixes for alpha-0.1

Merge pull request qiita-spots#689 from ElDeveloper/release-0.0.1

REL: Pre-Alpha release 0.0.1