update changelog

databio · May 13, 2019 · b363a8b · b363a8b
1 parent e162699
commit b363a8b
Showing 1 changed file with 26 additions and 14 deletions.
diff --git a/docs/changelog.md b/docs/changelog.md
@@ -1,9 +1,21 @@
 # Changelog
 
 ## Unreleased
+
+
+## [0.11.0] -- 2019-5-13
 - Improve python3 handling of integers and strings
+- Fixed a bug with cleanup scripts in `dirty` mode
+- Restructured profile output with hash and processID, and made lock paths relative
+- Streamlined some logging outputs
+- Allows nested parenthesies and braces for piped commands
+- Fixed a bug that would have split a pipe within a braced command
+- Some performance improvements for ngstk functions
+- Allow `ngstk.input_to_fastq` to yield gzipped fastq files
+
+
 
-## [0.10.0] - 2019-03-22
+## [0.10.0] -- 2019-03-22
 - Fixed a bug that raised exception with empty commands
 - Fixed the pipeline profiling issues
 - Major updates to internal systems: Switch to `attmap`
@@ -17,25 +29,25 @@ handling of rogues subprocesses during pipeline failure.
 - Fixed a bug that had prevented new start mode from working in certain cases.
 - Allow user to change units of memory passed in with default pypiper cli.
 
-## [0.9.4] - 2019-01-31
+## [0.9.4] -- 2019-01-31
 
 - Point release to PyPI for README rendering.
 
-## [0.9.3] - 2019-01-31
+## [0.9.3] -- 2019-01-31
 
 - Simple point release update to fix PyPI landing page.
 
-## [0.9.2] - 2019-01-30
+## [0.9.2] -- 2019-01-30
 
 - Never echo protected-looking attribute request.
 
-## [0.9.1] - 2019-01-29
+## [0.9.1] -- 2019-01-29
 
 - Fixed a bug in NGSTk that caused errors for read counting functions on 
 MACOS. MACOS `wc` returns leading whitespace, which caused these functions
 to fail.
 
-## [0.9.0] 2018-11-19
+## [0.9.0] -- 2018-11-19
 
 - Use `psutil` to track aggregate memory usage for processes that spawn
 children. This results in accurate memory records for these processes.
@@ -47,7 +59,7 @@ fail. Previously, only the final return command was recorded, as in `bash`.
 flags)
 
 
-## [0.8.1] - 2018-09-20
+## [0.8.1] -- 2018-09-20
 
 - Fixed a bug that caused a problem for some pipelines adding groups of pypiper args.
 - Improved the `run` waiting method to immediately stop upon job
@@ -56,7 +68,7 @@ flags)
   improve accuracy of timing profiles.
 
 
-## [0.8.0] - 2018-06-15
+## [0.8.0] -- 2018-06-15
 
 - Implemented 'new start' mode.
 - Improved error messages and exception handling for missing child software.
@@ -66,19 +78,19 @@ flags)
 - Clarified the license is BSD2
 - Fixed a bug that neglected to list pyyaml as a dependency
 
-## [0.7.2] - 2018-06-05
+## [0.7.2] -- 2018-06-05
 
 - Implemented the 'report object' function.
 - Cleanup files are now relative, so a moved folder could still be cleaned.
 - Fixed a bug that prevented install if pypandoc was not installed
 - Fixed a bug that caused an error in containers where /proc wasn't accessible
 
 
-## [0.7.1] - 2018-02-27
+## [0.7.1] -- 2018-02-27
 
 - Package cleanup for Pypi.
 
-## [0.7.0] - 2017-12-12
+## [0.7.0] -- 2017-12-12
 
 - Standardize `NGSTk` function naming.
 - Introduce `Stage` as a model for a logically related set of pipeline processing steps.
@@ -87,7 +99,7 @@ flags)
 - Introduce new state for a paused/halted pipeline.
 - Improve spawned process shutdown to avoid zombie processes.
 
-## [0.6.0] - 2017-08-24
+## [0.6.0] -- 2017-08-24
 
 - Adds 'dynamic recovery' capability. For jobs that are terminated by an interrupt, such as a SIGINT or SIGTERM (as opposed to a failed command), pypiper will now set a dynamic recovery flags. These jobs, when restarted, will automatically pick up where they left off, without requiring any user intervention. Previously, the user would have to specify recover mode (`-R`). Now, recover mode forces a recover regardless of failure type, but interrupted pipelines will auto-recover.
 - Pypiper now appropriately adds cleanup files intermediate files for failed runs. It adds them to the cleanup script.
@@ -98,7 +110,7 @@ flags)
 - Major improvements to documentation and tutorials.
 - Adds `report_figure` function.
 
-## [0.5.0] - 2017-07-21
+## [0.5.0] -- 2017-07-21
 
 - Adds preliminary support for handling docker containers
 - Updates docs, adds Hello World example
@@ -108,7 +120,7 @@ flags)
 - Updates Success time format to eliminate space
 - Improves efficiency in some ngstk merging functions
 
-## [0.4.0] - 2017-01-23
+## [0.4.0] -- 2017-01-23
 
 - First major public release!
 - Revamps pypiper args