Merge pull request #26 from wtsi-npg/devel

pull changes from wtsi devel to my devel
switch to samplesheet driver if NPG_CACHED_SAMPLESHEET_FILE is set; samplesheet driver - ensure that spiked_phix_tag_index is defined for a pool
Fix number of tests skipped when live/dev servers not available
Merge pull request #110 from dkj/devel

Fix number of tests skipped when live/dev servers not available
pulled changes from wtsi-devel
Changes and new conf files to run teh tracking server under apache2.2
reverted accidentally changed shebang line of one of CGI scripts; Changes and MANIFEST updated; hardcoded link to enigmatic authentication page
added missing definition of dev for cgi-bin location
secure PATH definition is needed to read staging areas free space
local PATH definition for the CGI script; global definition seems to interfere with mod perl
links to staging area server are picked up from config ...

"staging_url" parameter, and so are relative (to current host and port) if this is empty or non-existent
Use scratch109 for references
Merge pull request #112 from KateTaylor/use_scratch_109

Use scratch109 for references
Merge pull request #113 from wtsi-npg/devel

Fix tests skipped; use scratch109
Merge pull request #27 from dkj/apache_sfweb

links to staging area server are picked up from config ...
Changes: remove typos&update
remove outdated apache config file
correct listing of files in MANIFEST
specify customised location for APACHE_LOCK_DIR
apache configuration files changed to ensure that, for mod_perl, @INC is extended at server start up; use /cgi-bin/ url for enigmatic instead of /perl/ to restrict mod_perl apps on the prod webteam server to tracking and npgqc only