labofsahil/github-event-dataset-2012 huggingface dataset:
Additions to the amino acid code display functions in SeqUtils 

This pull request updates the `SeqUtils.seq3` function and adds a new `SeqUtils.seq1` function.

The updated `SeqUtils.seq3` function now accepts two more extra arguments:

* `term_map`, which is a mapping of custom amino acid termination character (e.g. `{'*': '***'}`)

* `undef_code`, which is a string for undefined characters

I've kept the previously hard coded values as the defaults for these two values, so this shouldn't introduce any bugs.

The new `SeqUtils.seq1` function is basically the reverse of `seq3`; it transforms a string of three-letter amino acid codes into a string containing single codes.

I stumbled on this when I was writing the parser for Exonerate. Exonerate uses three-letter AA codes (which I'm trying to turn into one-letter codes), and I thought it would be more useful if the three-to-one AA transformation code is made available Biopython-wide.

I've also updated the docstrings, and all doctests pass.
support for bucket.head() metadata request

this implements a bucket.head() method that retrieves only metadata for a existing key using HTTP HEAD /... instead of HTTP GET /... 
The rationale behind is that this is much more lightweight method  if one wants to check if a key exists or wants to retrieve a vclock for updating, especially with bigger contents
Crypto - melhorando coisas..
Changed log writer behaviour so it only creates a log file when required...

....
BUG 9588 I add popup to login in save dynaform

I add popup to login in save dynaform
CODE STYLE, gulliver/system/

FILES:
class.dbMaintenance.php
class.dbconnection.php
class.dbrecordset.php
class.dbsession.php
class.dbtable.php
class.httpProxyController.php
class.i18n_po.php
class.mailer.php
class.menu.php
class.objectTemplate.php
class.testTools.php
class.tree.php
class.unitTest.php
class.webResource.php
class.xmlDocument.php
class.xmlformExtension.php
Add Installer for TYPO3 Flow & Neos

TYPO3 Flow - and Neos which are built on top - uses composer as dependency manager, but requires specific support in regards to install paths etc. This commit includes the needed installer into composer/installers
Feature/update scripts2

Synchronize karaf scripts with desired demo workflow.
Develop

Bugs of the GRETunnel Fixed.

Now the interfaces of the gretunnels accept the "gr-x/x/x" pattern, and not the "gre.x", which is not configurable in a JunOS router.
Variant type extension code review + unit tests
Fixing import url. Chg to relative?
fixed removeTags function to remove pre-existing hidden values
Adds Grails plugin-update look busy script.

Yes it does need to be cleaned up some but it works and it's pretty light weight... but most importantly. It does work! ;)
Select a font in a PDF file

Selecting font by name using the FILENAME(FONTNAME) scheme has been implemented in SFReadPdfFont but not _SFReadPdfFont

However the latter is the one used by script, python and UI, which is weird.

I just move the font selection part from SF... to _SF...
tweak drop-down and add in filebrowser
fix filer bug; some interface tweaks

* Filer folder-name dropdown didn't work in Frost
* Add app title for posts from mobile interface
* Small interface tweaks
JFG-217 -- Defect fix: Parallel tests have identical duration
Interactive Tutorial

This implements a simple interactive tutorial, which pretty much follows the online examples and the tutorial we had.
Pass the Building Branch as an ENV Variable

My build scripts utilize this as a way to trigger additional sub-builds, allowing parallel building of the same commit. That piece of infrastructure is not suited for inclusion in mainstream Integrity, and this is all we need to do it.
MultiJson.with_adapter

```ruby

MultiJson.use :oj

MultiJson.with_adapter(:yajl) do
  # using yajl here for some reson
  MultiJson.load(json_string) # yajl kicks in
end

# still using oj here
MultiJson.dump(some_hash)

```
Hotfix/do no update the whole system

removed yum update, "rpm -q varnish" is added to test if varnish is already intalled
Use Buzz\Client\ClientInterface correctly

Because it was never imported (via use) it's unuseable. Please merge and tag!
Quick fixes

Just some quick fixes, descriptions in the commits.
Devel

Merging 0.1.7
Make the Makefile general-porpose

* Make the Makefile general-porpose
 * use pkc-config command to get the correct INCLUDEDIR & LIBS

* and add #include <stdint.h> in procutils.c, to fix the errors with libnetfilter_queue v1.0.2.
Correct rendering in multihead setup

Previously width and height were taken using Xrandr functions
for (presumably) primary output. But actual rendering didn't account
for the fact that primary output can cover arbitrary part of abstract
X11 screen. For example, I usually have my laptop's screen put to the
right of external screen. Thus the previous code would render login
screen on the external screen but using dimensions of laptops
screen (because it's set to be primary).

So the fix is to get primary output's viewport in the abstract screen
and perform rendering to it.
Allow disabling the bell rung on authentication failure

Personally, I get annoyed by the sudden bell if I mistype something in my password. So I added an ability to disable it via configuration file. The default value is to still to ring it. So no behaviour change here. Along the way I also documented tty_lock option.
Making 'mode' option work for zmqtransport

I also added setuptools and tests (use ./setup.py nosetests).
my fixes

- fixed bug issue #3 - merging of '', None and booleans
- added the confab.options to the public api so that you can set "use_sudo"

these are the show stoppers i fixed, there are other non-critical issues that we can tackle later
Remove ability to use a custom JWT subclass for parsing.

This functionality is not used and no longer planned to be used, removing it cleans up the API.
Celery 2.5 update

This is a new tack on "update celery". This updates celery from the egregiously problematic 2.1 series to the works-better 2.5 series.

Kitsune has been using 2.5.5 for some months now.

Celery is up to 3.0, but that introduces a binary requirement and a whole lot of API changes. So much so that we discussed it in pull #19 wondering whether it was worth it.

Anyhow, tl;dr, here's the celery 2.5 update. I tested it with fjord and it works super. It's probably the case there are some API changes, but it shouldn't be anything that requires days to fix.

r?
Some small fixes

- a fix to build on a newer MacOSX that doesn't have XCode 3 tools installed (but only XCode 4).
  I only tested this on my machine, which does not have XCode 4. Would be good to test this on
  a different Mac, maybe without XCode 4.
- fixed some forward declarations that would warn on clang
New patchset

Hello, Florian,
I've made a new patchset for dokuwiki highlighting in vim. Hopefully you'll find that the patches are useful. Please, give them a try.
Grüße,
  Vladimir
Prevent reference leak of bufferevent if getaddrinfo fails.

If "evutil_getaddrinfo_async_" fails (though not possible right now), the bufferevent will leak.
BZ 841157

Added force_add_env_var. Need to keep JENKINS_URL the same when additional Jenkins apps are created but also withstand a namespace change. So the namespace change calls force_add_env_var and everything else calls add_env_var which ignores updates to JENKINS_* if the env already exists (i.e. it's a new Jenkins app)
ExecTask: Do not change command attribute

ExecTask cannot be executed more than once (which we use), because it changes content of attribute command. If you use executable attribute, you will get error 'Either use "command" OR "executable' in the second call, because then both command and executable attributes are set.

This patch adds attribute realCommand which is used instead of original command. Attribute command is used only to store input from the user.
Fixed alias_method for #put! to point at #write! instead of #write.

It appears based on code comments that #put! was meant to be aliased to #write!, this commit just fixes that typo.
Added jQuery plugins manifest
メッセージの追加

試しております
Made the Launchable Property tester use the presentation compiler.

This makes the Debug As/Run As menus much faster. It was not uncommon to wait for many
seconds when hovering over those menus. Added a bunch of tests as well.

Fixed #100818, #100082 along the way.

Still need to find a way to disable the JavaLaunchableTester, which causes the same slowdown (trying to find if a file can be Run As Java Application). See [1001178](http://www.assembla.com/spaces/scala-ide/tickets/1001178-disable-javalaunchabletester-on-scala-files)
Added a ``Open the Log`` menu item under the Scala menu

I've made two changes to make the log easier to consult:

* Added a ``Open the Log`` menu item under the Scala menu. Clicking
  on it will open the log file inside Eclipse (using a standard text
  editor).

* The dialog opened when clicking the ``Report A Bug`` menu item
  (which is also located under the Scala menu) now contains a link to
  open the log file.

Hopefully, these changes will make it easier for a user to consult the
log and provide potentially useful information when creating a bug report.

Fixed #1000970.
Alm add task

Remove the existence test when adding new tasks to mingle and rally
Fixed a bug re: status
Improvements to the Brackets plugin

Here you go :)
allow github password to be pulled from a command

Also fixes some syntax to work on Ruby 1.8.
Update HW01_GitHubDemo.txt

Rebecca Slyder
Updated the HTML output window.
Fixing cypher tests #52

This should fix the tests in #52.

- the nodes are sometimes returned out of order with the "concurrent create", so I added ORDER BY to solve those failures
- you were missing a comma in the array test, which is the failure stated in #52

Tested in 1.9-SNAPSHOT as well.

Sorry, labeled the commit with the wrong ticket number.
[HBase] limiting amount of columns with filter

Hi there!

[07-30]
I worked a bit on titan this weekend, and I started changing getSlice to apply column limiting at server side. I used ColumnPaginatorFilter, which was created after ColumnCountFilter to be kind of SQL's LIMIT/OFFSET.

[08-03]
Found that clearStorage method was not using the same Configuration used in openDatabase method. I was testing with a different Zookeeper port when I found it.
Start adding politicians to problem form

**Note - not ready to be merged**
use path.join for 'views' setting
Moved print-method for Throwable to test.tree for consistency.
Fix for the lost windows copy dll dependency.

Previously worked if an nmake all was passed to any sub project. But wouldn't trigger if a specific target was built down the line.

Move add_custom_target -> add_custom_command as a post build hook to the real target. Fixes the problem.
New features; external data, sample consent.

Script to load external data

Factored out Plink annotation update code

Avoidance of unconsented samples

Many Perl critic suggestions
Handle datetimes before 1900

Created a patch to fix an issue in the serializing:

>>> import pyes, datetime
>>> es = pyes.ES()
>>> es.index({'created': datetime.datetime(1863, 2, 1) }, 'test-index', 'test', '123')
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/home/barnaby/git/pyes/pyes/es.py", line 990, in index
    return self._send_request(request_method, path, doc, querystring_args)
  File "/home/barnaby/git/pyes/pyes/es.py", line 405, in _send_request
    body = json.dumps(body, cls=self.encoder)
  File "/usr/lib/python2.7/dist-packages/simplejson/__init__.py", line 269, in dumps
    use_decimal=use_decimal, **kw).encode(obj)
  File "/usr/lib/python2.7/dist-packages/simplejson/encoder.py", line 216, in encode
    chunks = self.iterencode(o, _one_shot=True)
  File "/usr/lib/python2.7/dist-packages/simplejson/encoder.py", line 284, in iterencode
    return _iterencode(o, 0)
  File "/home/barnaby/git/pyes/pyes/es.py", line 168, in default
    return value.strftime("%Y-%m-%dT%H:%M:%S")
ValueError: year=1863 is before 1900; the datetime strftime() methods require year >= 1900
>>>
Added a check for missing authors tag on the function.

Added a check for missing authors tag on the function.
build against latest centos

the sqlalchemy hack is now version independent, and there's a problem with virt-who
Added ability to specify CSS classes on table el and header cells

...option to override table header tr
Update for latest version of Rack

The latest version of rack fails on the @env variable.  This change duplicates the functionality in omniauth
Fixed some minor translation mistakes

I think there was some minor translation/interpretation mistakes. Open to discussion though.

Not 100% sure about the translation of last sentence of the quote from "Idan Gazit" ("et non en fonction de croyances personnelles comme quoi la lecture de spécifications rendrait plus intelligent.") but couldn't find a good way to translate it so did not amend it.

Should we write in French or English here? :S
Critical fixes for OPTIONS and remote repository

There is also a fix for automatic flag with pkgng, but I plan to do a lot more to improve it.
Updated ApiClient to use new Session Manager classname

Zend\Session\Manager -> Zend\Session\SessionManager
Improve cancelability

Hi again. This allows the GPGServices progress dialog Cancel button to actually 
do something: via GPGController cancel.
Spawnsphere option to set spawned object's transform

This commit adds a flag to SpawnSphere that makes it set its spawned object's transform to its own transform upon spawning. This is helpful if you want to use SpawnSpheres for something other than the stock Player spawn scripts.

Uses a dynamic_cast since the spawn function shouldn't be called regularly enough to be a performance issue.
updated sv.po

Updated translation for swedish
Added chapter 9 notes.

From Chris and Verdi.
README: fix typo in saucy comment

This fixes a typo in a comment to http://hurl.it/ and grammar I guess. I don't know.
Added setIP to banEntry.

Useful if you bans keep happening from the same IP, so you can just banip <IP here>
Or just to keep track of where bans are coming from.
update of ai

增加二将5人的ai（马岱、关兴张苞、廖化、刘表、曹彰）
更新仁德ai
修正阵亡ai仍能判暴虐的问题

增加荀攸（群皇叔的代码）
vdr-addon: new plugins xineliboutput and text2skin, preparation for xine based VDR frontend as separate addon
linux-tbs-drivers: make remote keymap configurable
Fixed couple of bugs in the /Give and /InvClear 

Signed-off-by: Fallensk8ur <fallensk8ur1234@aol.com>
Added testrunner for Plone 4.2 , updated bootstrap.py
Updated for 557
Should fix black laser beams.
Fix AIOOB Issue with RenderPipe

Just some too high/low checks, should fix a bug found by a community
member.
I didn't use the github editor, promise
Implemented Accessory API!

Working on a Spoutcraft PR right now :)
Analyze splits bits to multiple lines

Fulfills request #109.
minor fixes

Hi Adam,

here are some fixes for minor issues highlighted by IDEA's yellow warnings and static analysis, plus some comment typos.

-- Martijn
Fix default window title.

Fix for adobe/brackets#1690
Added orange as a color.

Looks good!
this is a must have

or what?
Update etc/inc/priv.defs.inc

Include privileges for Diagnostics Sockets page
Virtual IP Edit consistent options, "Sockets listening" page, openVPN allow change mode

-changed "Firewall: Virtual IP Address: Edit" page to always have the same options available (if applicable) for IPalias/CARP/ProxyArp/other
(please check if proper options are active at any combination)

-Add a "Sockets listening" page to the Diagnostics menu.
This for easy viewing of what services are bound to which interface and port.
( based on the file diag_sockets.php from forum member 'bardelot' http://forum.pfsense.org/index.php/topic,53070.msg284360.html#msg284360 )

-Allow for changing OpenVPN TUN to TAP device mode without reboot.
Put in omniauth facebook strategy middleware configuration.

Change the app key and app secret the the right values in config/initializers/omniauth.rb
Dailymotion support

These add support for the Dailymotion (live streams only).
It (now) works for all streams I've tested.
I think the code is OK, even though there's a huge bit of JSON
thrown at us that I cannot deal with in a very satisfying manner...
Inserting total page count with <pdf:pagecount/>

Hi, 

I don't expect this to me merged, at least not yet yet, but I'd like to discuss on how this should be implemented properly.

I've understood that adding a proper support for pagecount-tag, would require a one more pass for layout process (or maybe it could be combined with the TOC-pass).

Anyway, I've failed to do this so far, because I'm not familiar enough with pisa/reportlab yet.

Currently, I'm just injecting an error prone placeholder for page-content and doing a search & replace for the final output. It's not hard to find problems with that approach and that's why I'm requesting help for this.

-Asko
An attempt to make enemies only drop certain types of stuff.

In an enemy definition file there is now the loot_type parameter available,
which can configure which items types to drop.

Play testing can be done at the level 1 goblins (only dropping money, daggers and clothes)

# The loot_type is a list of strings, which describe which kind of loot
# is being dropped. The strings should match the "loot" entry in the item
# database. Optionally a number can be passed after each string entry to
# adapt the probablity of the entry. If the optional probability number
# is omited, 1 is assumed.

# The following configuration has a sum of all weights of 5+1+4=10, so
# the distribution is steps of 10 percents.
# Gold will be dropped in 50 percent of the cases. In 10 percent there
# will be clothes and in the other remaining 40 percent a dagger will be dropped.
loot_type=gold,5,clothes,dagger,4
Bug fix on purge and resource deallocation enhancement

## Bug fix on purge

### Context
Random failure on ```PurgeAuditJobRequestTest``` due to bad date comparison.

### Description
In the purge process, there were two methods to transform the period given by the user into a java ```Date```: one was keeping the hours, minutes, seconds milliseconds, but not the other.

This  was leading to a bug as we could have a gap between the GUI message (for example announcing 3 rows to be deleted) and the real deleted row number (for example 4 rows deleted).

## Enhance resource deallocation

### Context
The ```CommandFileTest``` unit tests are failing regulary.

### Description
We now close explicitly the streams and readers during the run method.
i18n #20 and #27

webapp2_extras.i18n; Babel-0.9.6 and gaepytz-2011h: Industy standard internationalization renders the site in multiple languages
Issue: Fails to convert large numbers to v8

After some researching i found quite simple workaround, enought stable and concistent not to be bothered by this problem.

Because JS has no distinction between float and integer (they all are numbers), engine converts any 32-bit numbers without floating point to Fixnum (even if you supplied explicitly float number, e.g. 12.0), and any 64-bit number - to Float. In fact it fully corresponds previous rubyracer state (v0.10.1)
Fixes for issue #4, provisional fixes for #17 and #19

As in title.

Issue #4 deals with mentions of PPTP without sufficient warnings about its insecurity. With these two fixes I believe the issue canb e closed.

Issues #17 (move to LaTeX) and #19 (No build script) were created by yours truly. The latter three commits provide at least some base to work on for solving them.

A PDF produced by the script can be found at  http://www.acc.umu.se/~pettter/crypto-handbook.pdf
declare

split core declare() processing to independent function, and add handler for dojox/drawing/util/oo::declare()
Error protection in RestClient.DeserializeEntityBody

In my app I was getting randomly a NullReferenceException from this function. Although I've not been able to debug this error, wrapping the Deserialize command in a try-catch block makes the trick. In case of error, there will be no action.
Copy DMSF options

I've added the copy DMSF option when copying a project. You were right that it was necessary to override project copy view and the function copy of the project model.
I'm afraid that we can't expect that Redmine developers add view hook in reasonable time. Also project copy hook model_project_copy_before_save can't be used because we would need to add third parameter with option list to know whether a user checked "Copy DMSF" or not.
It's up to you if you accept this pull request and include the changes into the master branch.
Bad Dir.glob syntax hosing gemspec
bindestrich vor "löschen" weg.. wg. umbruch & weil sinnfrei..
Implement MyModel from data

Depends on:
https://github.com/dipth/split_data/pull/1
Torus

I forgot that I need to ask you to pull my commits in order for your branch to reflect the changes I made.
Fix Windows build error.

VisualC requires strict compliance with declaring all variables
at the start of a function, so can't have unused() before that.
updated RedRound theme js to less stupid header hover animation handling

Sorry for the drunken commit message.
Fancier battery segment for mac.

Doesn't display when battery is 100%

When less than 100%
~ ♡92% when discharging
~ ♥92% when charging
[fix] obj for _request should be pulled from cache and look like normal ...

Right now we are treating keys as objects if they do not exist in _request, this should really be reconstructed to an object and pulled from cache if possible.
link-rightclick-45

- When a link is right clicked, the extension will send you to the object for that link or for the hashtag object if the text of the link is a hashtag.

- A `console` object is created in a way that works on every window.

Fixes #45.
Fix issue with RedBean_Driver_PDO becoming confused after the database c...

...onnection is closed

Reference issue #138
CS fixes to match context of other redbean code

Minor changes, does not change functionality.
GTNWSRP-328 Was not properly handling pages with the same name ...

... but in different sites
Site generation

Generates site
REST server is now exitable
Fixed random test failure caused by not closing connections to test server
Added rest api, seperated project into maven modules
Attempting to call logger.error when logger is nil

We are seeing this error when a request timeout occurs:

```
NoMethodError: undefined method `error' for nil:NilClass

[GEM_ROOT]/gems/urbanairship-2.0.0/lib/urbanairship.rb:71:in `rescue in do_request'
[GEM_ROOT]/gems/urbanairship-2.0.0/lib/urbanairship.rb:55:in `do_request'
[GEM_ROOT]/gems/urbanairship-2.0.0/lib/urbanairship.rb:35:in `push'
```

I noticed that the rescue handler was attempting to call `logger.error`, but we are not setting logger in our initializer (inside a Rails 3.1 app). We have remedied the issue by setting the logger.

However, I did notice that there was defensive code around this in the `log_request_and_response` method, so I've added something similar to the `do_request` method.
weapon class

One code smell is seeing an array used to represent something other than
a list of things -- so seeing ['a gun', 10] where x[0] is always a name
and x[1] is always damage strongly suggests there's a way to do this in
a more organized matter.
Handle custom index types.

It looks like we updated  the 'indexTypeFromThrift' method without also updating the corresponding 'indexTypeToThrift' method. This just fixes that.
Javascript refactorings and linting

Some js-refactorings and linting.

Running the the autolint command from spec/ now returns only clean files.
(We should really strive to keep it this way, next step will be to require that the linter is happy in buster)
Ldap

My initial version of LDAP authentication, plus some docs.  Assigning to @payten because I had to look at a bunch of *his* stuff yesterday, and it's only fair (but more general feedback welcomed!)
[Delivers #36896105] Require manage_repository level permissions when vi...

...ewing and editing groups.
Bugfixes for typos in last pull request

1. restored: own font 'infofont' for messages & warnings
2. fixed: typo that caused helppage to crash
Fix the kerning check in renderUtf8TextWidth()

This is the completion of my fixes that went into PR \#383.
In the function renderUtf8TextWidth() the check for kerning and previous charcode was
meaningless (always true if kerning was true).
[issue-3] adding vim support

Adding
- vim support
- vim freemarker syntax file
- vim function to delete trailing whitespace on save
Only include first event for sqlite trigger

fixes gh-11
Added horizontal scrolling fix

I have used this on an HTML5 project for iPads, which involved a timeline that used horizontal scrolling. I had to incorporate something like this.

What do you think?

Also removed unnecessary variable startY.
Support for resuming of aborted streams

Since some of my streams are not very stable I had to implement a resuming function.

You can just use the -r flag. Then the stream automatically continues with the last existing part.

You can also set the segment number by ".rNUMBER" (e.g. -r25). Then the stream continues at this section (other existing sections will be overwritten)

Please review and merge into master.

Thanks!
fixed error for duplication of tweet
Issue #6 : enable/disable new messages button
sending a pull request

- added support for ec2 load balancers
- added the updated list of github ip's
- added optional logging upon 404's
IE/JSBuilder compatibility

The first 3 commits are fixes to the compiled js file (IE/JSBuilder compatibility).  The final 2 commits are my attempt to edit the src files to fix IE and JSBuilder compatibility issues.  I couldn't figure out how to only include the last 2 commits in the pull request, but those are the 2 that are probably most relevant.  The built files are mostly for us and so we have an easy way to track your upstream changes later.

Let me know if you have any questions.

- Kyle
Setting the title property as the title

I don't know how you actually set captions with view.js so I just set the title property of the image as the caption, let me know if that works.
pull request test

most important change ever.
Various fixes in single resource view

Various additions and fixes to the single resource view.
Please merge!
Editor: now showing all `OneToOneField`s as reverse inlines

This is a major change. All existing tests are still working, however, probably some additional Selenium tests should be written to test the new functionality. Please merge.
minimal command line example is (slightly) misleading

it seems to be suggested that if you have your spec files in spec/ directory, jasmine-node will find them. This does not appear to (now?) be the case. I have to explicitly specify the target directory. This would have been helpful to me, anyway. YMMV.
Twitter interface
Option for post-processor to update destination directory timestamp

On OSX and a hard drive formatted with exFat, the timestamp on the destination directory (such as ./Season 01/) of a file doesn't get updated. This messes up with my particular media player of choice (Plex) as the scanner will ignore the directory based solely on the directory timestamp. So it will ignore a directory because it deems that directory as not having been updated when in fact it has. 

This may not even require an option in /config/postProcessor, seems like something that should happen regardless and the helpers.touchPath() method could be called regardless, simply to ensure that this has happened.
Proxy xbmc images

The previous pull request didn't work when marachino was hosted with apache since apache would collapse // into / so special://masterprofile/... would turn into special:/masterprofile/... and then fail.
Importlib dependency

Django-medusa uses importlib, which is present in Python 2.7/3.1 standard libraries but not in older versions.  Use the version provided by Django, since it is already a dependency.
Fix Makefile issue that causes failed installs

On OSX the pkgclean target could be run before coffee, meaning the coffee
sources were removed before they were compiled.
Handle appropriate SMTP responses for non-EHLO servers

Servers that do not implement EHLO may return 500 (as per RFC 821) or 502 (RFC 1869). Handle this as "EHLO not supported" and continue if possible rather than bailing out the entire SMTP transaction.
Add mouse events to game states

This adds love.mousepressed for game states.
Fix for TRUNK-3753 Adds Request Context Path to Extension Url

Updates the logic for the org.openmrs.headerFull.userBar extension point on headerFull.jsp to be the same as the org.openmrs.gutter.tools extension point on gutter.jsp.

https://tickets.openmrs.org/browse/TRUNK-3753
Support FreeBSD in UberOmnibus (1 of 3)

Greetings,

I added a drop in replacement for fpm that creates a packing list pkg_create.
I also added libthr (fbsd thread implementation) to the health_check whitelist.

The only changes inline to all workflows (in render_tasks) are:
1.) Swap out the package creation command if we're on freebsd.
2.) Create and remove a temporary exclusion file containing files to be excluded from the package (if any)

Dependencies (only if platform == freebsd)::
1.) FreeBSD ports tree installed (/usr/ports/Tools/scripts/plist)
2.) awk (bsd awk or gawk should work, included in base system).
3.) pkg_create (included in base system)

Thanks,
Brandon
Update cask for Textadept.
Parent project update

#154 fix
- added possibility to automatically load more photos in the HomeFragment
- added hasNextPage method to the PagedResponse
Fixing #295 - Ensure Helpers.evolutionFor is run against database conifgured in FakeApplication
session.httpOnly is now configurable

session.httpOnly is now configurable like session.secure and session.maxAge
Fix uber-order

Currently when building with uber-build, the original tarball is
overwritten by the last one synced from a remote builder. This
presents a problem because the new tarball doesn't match the original
.asc file. This commit reorders the uberbuild to build and sign a
tarball last, ensuring our signature matches our tarball.

Signed-off-by: Moses Mendoza <moses@puppetlabs.com>
Fix missing desc from freight rc task
Add a crude 'refresh' task

This commit adds a task that parses the packaging
repo url and does a git pull on it, pulling in any
changes from the specified remote.

Signed-off-by: Moses Mendoza <moses@puppetlabs.com>
Patch 1

Just fixed up the example code for set_theme()
Will also need to be pushed to the 2.2 pyrodocs too?
Batchrun

Batch run tools
Preserve already present title attributes in time tags.

I'm using time tags that already have a title attribute, but jquery-timeago always override that attribute.

Example:
<time datetime="2012-05-10T10:06:02+02:00" title="May 10, 2012 10:06">May 10, 2012</time>

I want browsers with disabled JavaScript to display "May 10, 2012", while browsers with JavaScript should display "x times ago". But the title attribute should always be "May 10, 2012 10:06" (similar to GitHub dashboard) to allow a different human readable time format for title and tag content.

My patch only checks if a title attribute exists if the tag is a time tag to be backward compatible with current behavior and a title attribute will still be set if no one is given.
Fix issues described in e-mail

Hey Rebecca,

This PR should answer most of the questions you sent to me in an e-mail. :D

Let me know if you have any specific questions about what I've done here!

<3 <3 <3
Converting to widget
Fix for skip

Fix to allow skip button to work without breaking everything!
Making the twitter list drop down dynamic
Feature/36241699/allow smtp error on debug

We were caught by an error in send_order_email passing on unit and lettuce integration tests and then failing on the production server due to fail_silently being tied to settings.DEBUG.  We really do want to catch errors in debug mode.

Maybe this should default to False, or possibly settings.CARTRIDGE_EMAILS_FAIL_SILENTLY?
Added some standards

I have added 2 standards on which @richardmiller had done lot of work the last months:

 * Avoid horizontal scrolling on code examples;
 * Use a form of *you* instead of *we*.
[Components][Config] Fixed code sample for array nodes.

Just a little fix about array nodes in "Define and process configuration values" section.
Added Unicode information about routes

When/if symfony/symfony#3629 will be merged then this should be merged as well as it documents the change.

Thanks.
Fixed a typo in README.md.

A link's label and href were swapped.
Add intermediate git and link items to reference material

* Reordered some items too for a more logical progression through the trail
added @extend and @include to Sass trail
Fixed adding a previous removed object to the scene. (webglobject.__webg...

...lActive == null taken out and fixed)
DexGraph implements TransactionalGraph

* DexGraph implements TransactionalGraph. 
* A Session per-Tx. Previously just one Session, therefore no concurrency :-S
* Iterators automatically closed when the Tx is stopped. Previously Iterators were closed when the database is stopped, which is a problem for long-live DexGraph instances :-S

I know DexGraph breaks the semantics of TransactionalGraph by implementing this interface and not supporting the rollback operation, but the use of transactions fits with our concept of Session as well as solves the problem of the non-closed iterators. Therefore, it will make happier Dex/Blueprints users.

For this reason, I left the feature disabled:

        FEATURES.supportsTransactions = false;

In the future, Dex will support real transactions so we will be able to implement the rollback as expected. In the meanwhile, we could even implement a "logic" rollback.

Thanks
Clean up haddock documentation

Now it has a module declaration (I took the liberty of putting you name on it) plus and indexed of the parts of the module.

On code changes some parts where you passed (minDegree,maxDegree) to randomR and not used the functions again, now is passes as a boundaries a let randomR do the pattern matching.

I hope to do simplification of the code without altering it meaning in the future. Please upload this package again to hackage so it gets html documentation and a bump to the version 0.0.2 that you have on git.
F redesign connections
jdk7 friendly checkstyle

the old one does not like diamond (<>) operators...
Add support for new endpoint to extend the expiry of authentication tokens.

As of May 2012, Facebook is deprecating the `offline_access` permission.  There are short-term 2-hour tokens and long term 60-day tokens.  There is now a new endpoint in the Facebook graph API that allows a client to ask to extend an access token; the returned result may be the input token or a different token with a longer expiration time.  Add support for this new endpoint.
Ignored the TODO test for now, a couple of minor changes, including more...

... memory for maven.

PermGen space seems to be an issue going forward.. :(
Don't display netTime if it isn't present

The test base reporter displays `NaN` if `netTime` isn't present:

    SUCCESS (0.288 secs / NaN secs)

This makes sure that it isn't displayed:

    SUCCESS (0.288 secs)

Note that I'm using Mocha and not Jasmine.
Added new helper of type "comment"

Usage:

{{#comment}}
Anything here will be ignored
{{/comment}}

{{comment anything here will be ignored}}

The purpose of this helper is twofold:
1) To allow users to comment out code on the server that will
not be served to the users.
2) Allow commenting code during development without having to delete the code
Add Sandy/Ivy Bridge CPU models to the list for CPUID masking

Signed-off-by: Rob Hoes <rob.hoes@citrix.com>
Change vagrant-drupal to vagrant-rails.
Topologies shouldnt reinitialise their entities when they are cloned.

Removed the reinitialising line.
node.js client

fixed merge conflict of #30
BUG: Allow nditer object to be created with array-dtypes

There was an error-check which prevented this for scalar inputs,
but otherwise it already worked. Added a test as well.
fixing compilation on linux and RbConfig

fix lib64 and RbConfig
use current released version of skrill and usa_epay

spree_skrill and spree_usa_epay have been released top rubygems. The command line installer does not specify a specific sha anymore.
YUMng updates for 1.1.x

Current patches not merged into the 1.1.x branch (which is what I'm still using at this point.)  This does include the patch to reload Yum's configuration to account for any new .repo files that may have been installed.
Timos branch
C99 complex

This a large set of changes, first of all weeding out all the occurrences of "complex" and "complex32" and replacing them by their C99 counterparts. After that easy part was done, all of the ".re" and ".im" occurrences were found and replaced by "creal()" and "cimag()" where applicable, or completely rewritten in terms of proper complex algebra. All complex defines were replaced by their operator equivalents as well, to make for more readable code.

While this code compiles for me and I am not aware of any concrete errors, it is highly likely that I missed out on one or two problematic cases and the meaning of the code may have subtly changed somewhere. Having unit tests available would be fantastic, but in their absence, I would urge whomever reviews this to be cautious.
instance configuration at runtime

see #89

caveats:

* there was some confusion regardings strings vs. symbols (see commit messages); we wanna keep an eye on that
* mutable complex settings; see `FIXME` inline comments
* currently lacks fancy styling
* it might be nice to have form hints indicating whether a value is an array (CSV) or a string/number
util.isDate() does not check for invalid Dates

Currently, in Node 0.6.7, this returns true:
```javascript
var util = require('util');
util.isDate(new Date('not a date'));
```

This pull request adds an additional check to isDate() to check if the UNIX timestamp of the Date object is a number.
Support systems with PROC_EVENT_SID

A followup of pull request #75
Merging changes made in the master to the branch.
removed forgotten 'save_and_open_page'

this blowed when launchy tried to open browser on server, blows also on travis
Upload datasets to CKAN

CKAN uploads!

![ckan](http://www.rodsbot.com/images_maps_cache/3657-map-assoc.jpg)
Removed owner_id from project
Global Tables (Fixes #66)
[-] Project : ignore config.xml

I work in a local server, better to test and don't forget a change when I do It ; but when I go in the Back Office and show modules, my config.xml change with my native language, French. Maybe I'm not the only one, and this fix in the gitignore can help !
nav2D should be used instaed of options


options.actionName and options.serverName can be undefined.
A very small addition for chaining methods.

A very small addition for chaining methods, like: 

```php
$curl->get_url_data('http://www.simplemachines.org')->result('body');
```
Mod pane info update & locale optimizations

The list requires a new XML attribute named mods where the all the mods are listed, separated by a semicolon.

Screenshot: https://dl.dropbox.com/u/9031641/ftb-test/modinfo.png
Suppress warnings reported by gcc for main.c, partclone.c, progress.h

I fixed some warnings reported by gcc.

````
partclone.c:343:9: warning: unused variable ‘debug’ [-Wunused-variable]
partclone.c:1056:24: warning: unused variable ‘dev_size’ [-Wunused-variable]
partclone.c:1126:9: warning: unused variable ‘block’ [-Wunused-variable]
progress.h:53:13: warning: ‘calculate_speed’ declared ‘static’ but never defined [-Wunused-function]
progress.h:63:8: warning: ‘open_p_ncurses’ declared ‘static’ but never defined [-Wunused-function]
progress.h:64:8: warning: ‘close_p_ncurses’ declared ‘static’ but never defined [-Wunused-function]
main.c:130:11: warning: unused variable ‘s_count’ [-Wunused-variable]
main.c:128:11: warning: unused variable ‘n_crc_size’ [-Wunused-variable]
partclone.c:348:20: warning: unused variable ‘opt’ [-Wunused-variable]
````

````
$ ./configure --enable-fat --enable-ncursesw CFLAGS="-std=gnu99 -Wall"
$ make 2> make.log
````

and

````
$ ./configure --enable-fat CFLAGS="-std=gnu99 -Wall"
$ make 2> make.log
````
Review: Fall 2012 Ruby profile info

– Added my profile information
XModInfotree : correction apparition menu publier...

XModInfotree : correction apparition menu publier
XModScheduler/System : ajout d'une fonction emptyOrUnchanged pour eviter une erreur de tar dans le scheduler

PS : Je pense que la valeur "TZR_unchanged" devrait etre mise en constante et que partout ou "TZR_unchanged" apparait, il faudrait utiliser cette nouvelle fonction (je te laisse mettre un point support ou un truc du genre si ca te parait etre une bonne idée)
Feature: Output component now responds to a Stop command on Asterisk

Output component now responds to a Stop command on Asterisk, as per description.
Please review tests.
Fix #948 404 error while uploading elements in bridge
Ios support

restructured project to have 3 folders
common
=> the platform independent core: sources & resources

ios
=> iPhone/iPad App. And KissXML lib as a drop-in replacement for NSXMLDoc

osx
=> OSX App. And PTHotKey as before and original growl (btw 2.0 works fine here later. will send all to nc)

---
I made SubmitRadar a TAD easier to debug by splitting the MEGA method into four BIG methods

I 'tested' iOS and osx and they work as before and you can submit radars just fine. The most trouble was to get KissXML to parse the NSData to xml correctly. libxml2 is more strict on the iPhone and I had to implement some html fallbacks which I contributed to KissXML
Added ui-date-format directive to be used in conjunction with date directive.

This is a proposed solution to the on-going problems people have with passing strings to the ui-date directive via ng-model.  The problem is how to tell the date directive how to parse strings that may have dates in a variety of formats.  See https://github.com/angular-ui/angular-ui/pull/217

The solution goes as follows:

1) The ui-date directive only accepts javascript Date objects in ng-model.  This is clean and clear.  Application developers can manipulate their scope to provide objects rather than strings.  The date directive does not conversion of strings and in fact throws an exception if one tries to pass a non-Date to it.
2) A second directive ui-date-format can be used in conjunction to ui-date to pre-parse/post-format strings from a specified date format into Date objects for the ui-date directive to consume.  This ensures that a Date object is provided to the ui-date directive and also that the scope object is always a string in the format specified.  The date-format directive would default, if not given a format string to ISO date formats.  The format strings allowed would follow what is allowed by the jquery ui datepicker.

Example usage:

``` javascript
$scope.myDate = '12 May 2012';
```

``` html
<input ui-date ng-model="myDate" ui-date-format="dd MM yy"/>
```
Updated testing to include test-watch-config.js (temporary fix)

Moved template.js up to match modules structure
Added templateSpec.js and template.js to test configs, they are test ready
One more fix for calibration background value.
Just cards
Activation link fix

Hi,
The initial activation email that goes out to new users appears to have the link back to the activation route in the wrong order.  This should fix it.

-Al
790481: Send up headers with the subscription-manager and python-rhsm ve...

...rsion info.

The headers will look like this:

  x-subscription-manager-version: 1.1.1-1.git.7.e8631ec.fc17
  x-python-rhsm-version: 1.1.3-1.git.1.4c46ecf.fc17
Adding java sample app
disable ThreadingTCPServer dns revsere lookup, sometimes it will be slow
fixed #1070 correct touch event mistake

correct touch event mistake
Brews

Implement basic logging of brews. Implements portions of #16 and #17
Squeryl/Record support

Added property files to externalize DB connection.
Updated dependencies.
Updated DB initialization process (Db.initialize)
Updated TestDataMaker with a helper method and a @todo to spot a
potential bug (pending to create unit test for confirmation)
SBT 0.12.0 and minor plugin updates.
DE821 - Make logs a tar of tars and make it faster. [3/6]



 barclamps/crowbar |    2 +-
 barclamps/logging |    2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)
Fix nagios test for enabling hw monitoring to depend on barclamp presence [5/5]



 barclamps/nagios |    2 +-
 1 files changed, 1 insertions(+), 1 deletions(-)
update EPEL repository location [4/5]

to replace a dead one


 barclamps/crowbar |    2 +-
 1 files changed, 1 insertions(+), 1 deletions(-)
Tweak dev to work better if rake ismissing and fix more unit tests. [2/5]



 barclamps/crowbar |    2 +-
 dev               |   14 ++++++++++----
 2 files changed, 11 insertions(+), 5 deletions(-)
Fixed Firefox export and node validation in proposal save/apply. [5/5]



 barclamps/crowbar |    2 +-
 1 files changed, 1 insertions(+), 1 deletions(-)
correct spaces at plugin.yml
Added option to show/hide selected color and hover color indicators
Restore backward compatibility of the mailer
Fix broken alias command on Mac OS X

Sed on Mac OS X doesn't support \n in the right hand side of a replacement. This broke the alias script. Example:


ej@Yamnuska ~/unnamed> echo ec2-ssh=ssh | sed -e 's/\([^=]\)=/\1\n/'
ec2-sshnssh


This fixes it.
Add flowCacheService interface
ADD Spanish translations

comment needs translation.
Add some missing Dutch translations

I added some missing Dutch translations for batch actions and comments. Thanks!
Adding a hook into the DELETE api so that the extension can do some cleanup

The main cleanup being done is dropping all of the iptables rules for the launched instance when it gets deleted.
ISPN-2426 putForExternalRead() does not unlock if entry already exists

5.1.x version of https://issues.jboss.org/browse/ISPN-2426
ISPN-1794 change default minIdle attribute for hot rod client

https://issues.jboss.org/browse/ISPN-1794
Also t_ISPN-1794_51x for JDG/5.1.x.
ISPN-1367 Make class resolver configurable

https://issues.jboss.org/browse/ISPN-1367

To avoid needing to switch internals to new configuration, old configuration has been enhanced to allow class resolver to be configured. Obviously, new configuration has also been enhanced.

`5.1.x` branch: `t_1367_2_5`
Deleted the debug println statement in JndiEnvironmentSetter

Hello guys,
I just wanted to get rid of the debug println statement in the JNDI code and ask you, if there will be new release compatible with Scala 2.10.  I am preparing on upgrading scala version on my project, once scala hits stable and I do depend on your fantastic library with all my tests, so I wanted to help a bit.
I went ahead and started the upgrade, feel free to look at it at [https://github.com/zuzkins/specs2-spring/compare/zuzkins:master...zuzkins:scala-2.10-upgrade], it wasn't that smooth as I thought it would be
- It is completely untested my project is on 2.9.2 still (and for some time still will be)
- I had to change the plugin versions, since I wanted to use sbt 0.12 
- Don't know if there were some changes between the plugin updates sbt-release and sbt-pgp which would break the configuration currently in place
- Had to fix a compile error after upgrading to specs2-1.12.2 (which I have not tested)

But its just showcase of what needed to be done.

Thank you 
:J
SWITCHYARD-1094 Clean up namingmixin on uninitialise. Fix running Transa...

...ctionMixInTest standalone.

( Running TransactionMixInTest standalone failed as NamingMixIn did not seem to be initialised. Lukasz thought NamingMixIn uninitialise was missing some bits as well).
Only return a path if the cacert.pem file exists.

This will permit the deletion of just that one file in order
to fall back to the [probably more accurate but less consistent]
Distro provided CA certs.  

I need to be able to add our internal CA and I don't want to have to patch your module every time I upgrade.  Personally, I think it is backwards to prefer your own CA certs with no good way to prefer
the OS/Distro provided certs.  I realize it makes your testing much easier since you have a known
list of certs.  Providing an environment override is a poor substitute to an actual API.