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APPDEV-4334: Move ci_upgrade branch to be trunk

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    /app/trunk/system/libraries/Xmlrpc.php
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    /app/trunk/system/helpers/cookie_helper.php
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    /app/trunk/system/language/english/imglib_lang.php
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    /app/trunk/system/helpers/string_helper.php
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    /app/trunk/system/libraries/index.html
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APPDEV-4315: fixing issue with samples always being saved as inactive
APPDEV-4195: Manually merging all changes made to trunk for jiras: APPDEV-4303 and APPDEV-4307
APPDEV-000: merge trunk into ci_upgrade branch
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APPDEV-4195: Merge all from trunk at 175
APPDEV-4195: Merge all from trunk at 172
APPDEV-4195: Previous versions of CodeIgniter used to have an override set for the max_execution_time in the Codeigniter.php (to 5 minutes), but do not have it set for CodeIgniter 3, so modified code to add this override to the service model (but just for 2 minutes, as the middle tier only has 2 minutes) - the same way we did it for dashboard.
APPDEV-4195: codeigniter upgrade to version 3
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APPDEV-4195: replacing with system folder from version3
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    /app/branches/ci_upgrade/system/core/URI.php
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    /app/branches/ci_upgrade/system/core/Lang.php
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APPDEV-4195: deleting system folder to replace with new folder
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APPDEV-4195: new breanch for repnetweb CI upgrade
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    /app/branches/ci_upgrade/system/core/Lang.php
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