UPDATE: Many changes in AbstractFastqProcessThread and related classes to allow create collector that only process FASTQ file like undetermined indices.
ADD: Add a new collector that allow to process undetermined indices that can be recovered using a demultiplexing with mismatches. Note that an AozanTest is still missing to process this data.
ADD: New test. First test that use data collected for recoverable clusters. The new test RecoverablePFClusterSampleTest get the number of recoverable passing filter clusters.
FIX: In AbstractFastqCollector, the variable fastqSamples is now an
instance variable and no more a class variable. This variable is now
also private. A getter allow to access to it content.
FIX: Some execution fixes for UndeterminedIndexesProcessThreads.
FIX: In AbstractFastqCollector.saveResultPart(), the path were part data
are saved was wrong when process Undetermined indices.
FIX: Some fixes in UndeterminedIndexesProcessThreads.
FIX: In UndeterminedIndexesProcessThreads, in the result file for a
lane, samples was represented by their index. Now use the sample name
instead of the index.
ADD: Add a new type of test in QC: Global tests.
ADD: Add first global tests for QC (raw cluster count, pf cluster count, percent pf clusters, base count and non indexed base count).
ADD: Add site documentation about global tests.
Merge branch 'global_tests' into pluggins_collector

Conflicts:
	src/main/java/META-INF/services/fr.ens.transcriptome.aozan.collectors.Collector
	src/main/java/META-INF/services/fr.ens.transcriptome.aozan.tests.AozanTest
CHANGE: FastQC v0.11.2 instead of FastQC v0.10.1.
ADD: two Aozan Test for new modules FastQC v0.11.2 :
TileSequencesContent and AdapterContent.
REMOVE: one Aozan Test, associated module FastQC BaseGCSequence remove.
UPDATE: number anchor value in quality control report html .
UPDATE: with use FastQC v0.11.2. Add call of two new Aozan test and
optional parameters of FastQC (adapter file, limits files, expgroup).
ADD: configuration FastQC v0.11.2 before initialize AozanTest from Aozan
configuration file.
ADD: new parameters from FastQC: adapter file, limits file and expgroup.
UPDATE: creation of report FastQC;
UPDATE: list modules from FastQC.
UPDATE: writing result in final report, now use xml instead html.
UPDATE: with FastQC v0.11.2, now is not necessary to patch class
HTMLReportArchive.