Nextflow

- Fixed Variable task.exitStatus throws an exception when comparing it to an integer value 142
- Fixed PublishDir does not handle hard linking of directories 126
- Added `index` implicit variable to the `task` execution context 139
- Improved installer messages
- Updated Gradle runtime to version 2.13

- Fixed Input files containing a parenthesis in the path are not staged properly 133.
- Fixed Process execution hangs when using Ignite executor with a foreign work path 136.
- Fixed Sort output files in lexicographical order 137.
- Added `false` as `sort` option in the `collectFile` operator.

- Added `legacy` option to docker configuration properties.
Added support for `--cpuset-cpus` Docker command line option. See 115
- Added `region` option to AWS S3 config properties 116
- Added support for AWS S3 multipart uploads 112
- Added `NXF_TRACE` to enable application trace logging
- Added experimental support for Shifter containers
- Added experimental support for HTCondor scheduler
- Fixed Input file names staged into a subdirectory are not expanded properly 111
- Fixed Main script class name collides with variable names in global scope 113
- Fixed config file having a name as a top level config options raise a MissingPropertyException 117
- Fixed Process script errors should not be ignored 119
- Fixed timeline margin for long labels - fix 120
- Fixed Process `start` time is not reported correctly when using the Ignite executor 122
- Fixed Allow for a per-job memory limit for LSF executor 123
- Fixed Memory reservation should not be divided by the number of cpus 124
- Fixed Mixed content errors if timeline.html served over HTTPS 127
- Fixed Nextflow won't start if a proxy URL env variable contains a trailing slash 109
- Set poolSize as the number of avail cpus
- Set `java.io.tmpdir` to the same path as `NXF_TEMP`
- Updated Apache Ignite to version 1.5.0
- Updated Logback to version 1.1.6
- Updated Slf4j to version 1.7.21
- Updated JGit to version 4.3.0.201604071810-r

- Fixed task status in the trace file when execution is retried 107
- Improved Ignite scheduling and node resources allocation
- Upgraded Logback to version 1.1.5
- Upgraded Slf4j to version 1.7.16

- Fixed Channel.subscribe is invoked after the Workflow.onComplete handler 105
- Changed default trace file name to `trace.txt` 106
- Changed launcher classpath cache file under user home
- Added JobStealingFailoverSpi to Ignite executor
- Update JGit to version 4.2.0

- Fixed splitText performance issue 102
- Fixed execution hang when a process script block report and error and retry error strategy is set
- Added support for partition to SLURM executor 101
- Use a dedicated reentrant lock to handle task completion event