greenelab/cimr issues and pull requests

#70 - Add analysis examples

Issue - State: open - Opened by ypar almost 3 years ago

#69 - Bump pyyaml from 5.2 to 5.4

Pull Request - State: open - Opened by dependabot[bot] over 3 years ago - 2 comments
Labels: dependencies

#68 - Doc update

Pull Request - State: closed - Opened by ypar over 4 years ago

#67 - macOS in parallel mode: log messages in child processes swallowed

Issue - State: open - Opened by dongbohu almost 5 years ago - 2 comments

#66 - Catch exceptions in child processes

Pull Request - State: closed - Opened by dongbohu almost 5 years ago

#65 - Catch exceptions in child processes

Issue - State: closed - Opened by dongbohu almost 5 years ago - 1 comment

#64 - Parallel data processing

Pull Request - State: closed - Opened by dongbohu almost 5 years ago

#63 - Parallel data processing

Pull Request - State: closed - Opened by dongbohu almost 5 years ago - 1 comment

#62 - self.genome_id and self.data['build']

Issue - State: closed - Opened by dongbohu almost 5 years ago - 3 comments

#61 - Redundant ref file downloading?

Issue - State: closed - Opened by dongbohu almost 5 years ago - 3 comments

#60 - Bug report: uncaught exception in EQTL test case

Issue - State: closed - Opened by dongbohu almost 5 years ago - 2 comments

#59 - Polish v 0 1 6

Pull Request - State: closed - Opened by ypar almost 5 years ago - 2 comments

#58 - Pandas 0.25.1 vs 1.0.0

Issue - State: closed - Opened by dongbohu almost 5 years ago - 1 comment

#57 - Harmonization and other processing features

Pull Request - State: closed - Opened by ypar about 5 years ago - 1 comment

#56 - Filling in missing values

Pull Request - State: closed - Opened by ypar about 5 years ago

#55 - Example file consistency

Pull Request - State: closed - Opened by ypar about 5 years ago

#54 - Add or

Pull Request - State: closed - Opened by ypar about 5 years ago

#53 - dbox + default [duplicate]

Pull Request - State: closed - Opened by ypar about 5 years ago

#52 - changing chunksize default

Pull Request - State: closed - Opened by ypar about 5 years ago

#51 - changing the default chunksize

Pull Request - State: closed - Opened by ypar about 5 years ago

#50 - added test cases and updated cimr to work with dropbox share links

Pull Request - State: closed - Opened by ypar about 5 years ago - 1 comment

#49 - split utils to utils and process

Pull Request - State: closed - Opened by ypar about 5 years ago

#48 - Object out of the loop

Issue - State: closed - Opened by ypar about 5 years ago - 1 comment

#47 - Anticipating files with different delimiters

Issue - State: closed - Opened by ypar about 5 years ago - 1 comment

#46 - Processing files with missing variant_id

Pull Request - State: closed - Opened by ypar over 5 years ago

#45 - Global CATALOG not needed

Issue - State: closed - Opened by dongbohu over 5 years ago - 2 comments

#44 - ERROR or WARNING in log messages

Issue - State: closed - Opened by dongbohu over 5 years ago - 2 comments

#43 - Add date and time in log?

Issue - State: closed - Opened by dongbohu over 5 years ago - 1 comment

#42 - Catalog updated before data processing

Issue - State: closed - Opened by dongbohu over 5 years ago - 3 comments

#41 - Cleanup

Pull Request - State: closed - Opened by ypar over 5 years ago

#40 - Fix verify_dir() function

Pull Request - State: closed - Opened by dongbohu over 5 years ago

#39 - Bug in "multiple" data_type handling

Issue - State: closed - Opened by dongbohu over 5 years ago - 4 comments

#38 - Updated link handling for zenodo and gdrive

Pull Request - State: closed - Opened by ypar over 5 years ago

#37 - Avoid duplicates output files

Issue - State: closed - Opened by dongbohu over 5 years ago - 1 comment

#36 - CircleCI Setup

Pull Request - State: closed - Opened by dongbohu over 5 years ago

#35 - Mapping gene IDs across different databases and other edits

Pull Request - State: closed - Opened by ypar over 5 years ago

#34 - Add test cases for data types supported

Issue - State: closed - Opened by dongbohu over 5 years ago - 1 comment

#33 - hdf5 output functions added for testing

Pull Request - State: closed - Opened by ypar over 5 years ago - 1 comment

#32 - mostly cosmetic edits

Pull Request - State: closed - Opened by ypar over 5 years ago

#31 - edit chunksize default and remove rsnum fatal error

Pull Request - State: closed - Opened by ypar over 5 years ago

#30 - `download_file()` function in utils.py

Issue - State: closed - Opened by dongbohu over 5 years ago - 1 comment

#29 - merging in cimr-d parse_yaml

Pull Request - State: closed - Opened by ypar over 5 years ago - 6 comments

#28 - Doctree update

Pull Request - State: closed - Opened by ypar over 5 years ago

#27 - resolving merge conflict for read_file function

Pull Request - State: closed - Opened by ypar over 5 years ago

#26 - Chunk processing option

Pull Request - State: closed - Opened by ypar over 5 years ago

#25 - processing files in smaller bits

Pull Request - State: closed - Opened by ypar over 5 years ago

#24 - Testing travis pr without rs id checking step, which requires git lfs files

Pull Request - State: closed - Opened by ypar over 5 years ago

#23 - warning emphasis; column heading change;

Pull Request - State: closed - Opened by ypar over 5 years ago - 2 comments

#22 - editing contributing doc; requirements update;

Pull Request - State: closed - Opened by ypar over 5 years ago

#21 - adding citations; Tadpole functionalities; rs ID lookup function; updated prompt;

Pull Request - State: closed - Opened by ypar over 5 years ago

#20 - evaluate whether pandas is a necessary requirement

Issue - State: closed - Opened by ypar over 5 years ago - 1 comment

#19 - adding functionalities to Tadpole for cimr-d integration

Pull Request - State: closed - Opened by ypar over 5 years ago - 1 comment

#18 - rebuilding doctree

Pull Request - State: closed - Opened by ypar almost 6 years ago

#17 - revert conf.py change from last pr

Pull Request - State: closed - Opened by ypar almost 6 years ago

#16 - checking sphinx error

Pull Request - State: closed - Opened by ypar almost 6 years ago

#15 - check_ensembl implementation

Issue - State: closed - Opened by ypar almost 6 years ago - 1 comment

#14 - adding in Tadpole; adding in Querier; editing doc;

Pull Request - State: closed - Opened by ypar almost 6 years ago - 1 comment

#13 - Adding the Querier class; updating doc;

Pull Request - State: closed - Opened by ypar almost 6 years ago

#12 - restructuring processor and base class for network

Pull Request - State: closed - Opened by ypar almost 6 years ago - 1 comment

#11 - port newly added gwas into cimr-adb after all checks pass

Issue - State: closed - Opened by ypar almost 6 years ago - 1 comment

#10 - build test for util functions and testing data reference

Pull Request - State: closed - Opened by ypar almost 6 years ago

#9 - add in READMEs

Issue - State: closed - Opened by ypar almost 6 years ago - 1 comment

#8 - add in docker images for example analysis

Issue - State: closed - Opened by ypar almost 6 years ago - 1 comment

#7 - new license, new checking functions and name changes

Pull Request - State: closed - Opened by ypar almost 6 years ago - 5 comments

#6 - compare input file coordinates to annotation reference

Issue - State: closed - Opened by ypar almost 6 years ago

#5 - Add a license

Issue - State: closed - Opened by cgreene about 6 years ago - 1 comment

#4 - more restructuring and basic setup stuff

Pull Request - State: closed - Opened by ypar about 6 years ago

#3 - write a readme with example input files

Issue - State: closed - Opened by ypar about 6 years ago - 1 comment

#2 - incorporate a ci service - tentatively travis for sanity checks on files

Issue - State: closed - Opened by ypar about 6 years ago - 1 comment

#1 - input file checker for gwas and eqtl summary statistics submission

Issue - State: closed - Opened by ypar about 6 years ago - 1 comment

GitHub / greenelab/cimr issues and pull requests