genomic-medicine-sweden/NGPIris issues and pull requests

#92 - Decorator type in documentation

Issue - State: open - Opened by erik-brink about 2 months ago
Labels: bug, documentation

#91 - IRIS 5.1.0

Pull Request - State: closed - Opened by erik-brink about 2 months ago

#90 - The `delete-folder` command incorrectly prints that files doesn't exist

Issue - State: closed - Opened by erik-brink 3 months ago
Labels: bug

#89 - Add dry run for `delete-folder` command

Issue - State: open - Opened by erik-brink 3 months ago

#88 - Download multiple objects at once in parallel or concurrently

Issue - State: open - Opened by erik-brink 3 months ago
Labels: In progress

#87 - 86 download multiple objects at once

Pull Request - State: closed - Opened by erik-brink 3 months ago

#86 - Download multiple objects at once

Issue - State: closed - Opened by erik-brink 3 months ago
Labels: In progress, Pull request available

#85 - Add `create_bucket`

Pull Request - State: closed - Opened by erik-brink 4 months ago

#84 - 83 add pagination

Pull Request - State: closed - Opened by erik-brink 4 months ago - 1 comment

#83 - Add pagination

Issue - State: closed - Opened by erik-brink 4 months ago
Labels: In progress, Pull request available

#82 - 69 set up automated testing

Pull Request - State: open - Opened by erik-brink 5 months ago

#81 - Add version check for up- and downloads

Pull Request - State: closed - Opened by erik-brink 5 months ago

#80 - 33 search for existing objects before upload

Pull Request - State: closed - Opened by erik-brink 5 months ago

#79 - Update `dev` with all commits from `master`

Pull Request - State: closed - Opened by erik-brink 5 months ago

#78 - Bump urllib3 from 1.26.18 to 1.26.19

Pull Request - State: closed - Opened by dependabot[bot] 5 months ago
Labels: dependencies

#77 - Complete iris overhaul

Pull Request - State: closed - Opened by sylvinite 5 months ago

#76 - Product Iris releases in docker containers

Issue - State: open - Opened by sylvinite 6 months ago

#75 - Have Iris CLI parameters take priority

Issue - State: open - Opened by sylvinite 6 months ago
Labels: More details needed

#74 - Verify buckets have no associated memory issues

Issue - State: open - Opened by sylvinite 6 months ago
Labels: More details needed

#73 - Verify data is encrypted before upload

Issue - State: open - Opened by sylvinite 6 months ago
Labels: More details needed

#72 - Include md5 check in Iris download

Issue - State: open - Opened by sylvinite 6 months ago - 1 comment
Labels: More details needed

#71 - Add signficant Iris test coverage

Issue - State: closed - Opened by sylvinite 6 months ago

#70 - Iris bucket creation

Issue - State: closed - Opened by sylvinite 6 months ago
Labels: In progress, Pull request available

#69 - Set up automated testing

Issue - State: open - Opened by sylvinite 6 months ago
Labels: In progress, Pull request available

#68 - Verify metadata in Iris Upload

Issue - State: open - Opened by sylvinite 6 months ago

#67 - Add strict versioning

Issue - State: open - Opened by sylvinite 6 months ago
Labels: In progress

#66 - Integration of Iris 5 into main repo

Pull Request - State: closed - Opened by sylvinite 6 months ago

#65 - Urllib3 version dependency

Pull Request - State: closed - Opened by JPWerling 7 months ago

#64 - Handle failed-but-not-failed connections with better error messages

Issue - State: closed - Opened by sylvinite almost 1 year ago

#63 - Update file extension warnings to be gracious about compressions

Issue - State: open - Opened by sylvinite about 1 year ago
Labels: More details needed

#62 - When deleting files. Add folder deletion to the END of the rm procedure

Issue - State: open - Opened by sylvinite about 1 year ago
Labels: More details needed

#61 - Quick updown cli

Pull Request - State: closed - Opened by JPWerling over 1 year ago

#60 - Minor HCI tweaks

Pull Request - State: closed - Opened by sylvinite over 1 year ago

#59 - Understandability

Pull Request - State: closed - Opened by sylvinite over 1 year ago

#58 - ariba prepareref FileNotFoundError

Issue - State: closed - Opened by sylvinite almost 2 years ago

#57 - Upload and CLI usage

Pull Request - State: closed - Opened by sylvinite almost 2 years ago

#56 - List-buckets only lists owned buckets. Not all buckets

Issue - State: closed - Opened by sylvinite almost 2 years ago

#55 - Search improvments and refactoring

Pull Request - State: closed - Opened by sylvinite about 2 years ago

#54 - Joint IS & HS dev of linux terminal fix

Pull Request - State: closed - Opened by sylvinite about 2 years ago

#53 - Remove tac dependecy

Issue - State: closed - Opened by sylvinite over 2 years ago

#52 - Novel search modes

Pull Request - State: closed - Opened by sylvinite over 2 years ago

#51 - Download fixes

Pull Request - State: closed - Opened by sylvinite over 2 years ago

#50 - Add/Verify upload of set of files

Issue - State: closed - Opened by sylvinite over 2 years ago - 1 comment

#49 - Root cli testconnection

Pull Request - State: closed - Opened by JPWerling almost 3 years ago

#47 - Add connection test to CLI

Issue - State: closed - Opened by sylvinite almost 3 years ago

#46 - Restrict users from attempting to upload files to absolute path /tmp/

Issue - State: open - Opened by sylvinite almost 3 years ago
Labels: More details needed

#44 - Autotest exception fix

Pull Request - State: closed - Opened by JPWerling almost 3 years ago - 2 comments

#43 - Can not find objects created after instantiation via .get_object()

Issue - State: closed - Opened by JPWerling about 3 years ago - 1 comment

#42 - Fix non terminal error

Pull Request - State: closed - Opened by JPWerling about 3 years ago - 2 comments
Labels: bug

#41 - Bugs out when given folder as input

Issue - State: closed - Opened by pbiology about 3 years ago
Labels: bug

#40 - Write Multi Part uploader

Issue - State: closed - Opened by sylvinite about 3 years ago - 1 comment
Labels: enhancement

#39 - Move CLI functionality to library

Issue - State: open - Opened by sylvinite about 3 years ago
Labels: enhancement, undefined, More details needed

#38 - Iris concurrency could potentially bug out

Issue - State: closed - Opened by sylvinite about 3 years ago
Labels: bug

#37 - Iris could potentially error out if the files are too big?

Issue - State: closed - Opened by sylvinite about 3 years ago - 1 comment
Labels: bug

#36 - Identify and remove data/WNB5154BT/WNB154BT_R2.fastq.gz

Issue - State: closed - Opened by sylvinite about 3 years ago
Labels: bug

#35 - When a file is "already present" do an e-tag check to make sure its the same file

Issue - State: closed - Opened by sylvinite about 3 years ago - 4 comments
Labels: enhancement

#34 - When -o is just set for a folder. Default to using the same file name as input

Issue - State: closed - Opened by sylvinite about 3 years ago
Labels: enhancement, solved in dev

#33 - Search for existing objects before upload

Issue - State: closed - Opened by pbiology about 3 years ago
Labels: enhancement

#32 - Its slow to start uploads

Issue - State: closed - Opened by sylvinite about 3 years ago - 1 comment

#31 - Implement mixed folder upload & download

Issue - State: closed - Opened by sylvinite about 3 years ago
Labels: enhancement

#30 - Search wildcard support

Issue - State: closed - Opened by sylvinite about 3 years ago
Labels: enhancement

#29 - Add error when uploading atypical without flag

Issue - State: closed - Opened by sylvinite about 3 years ago
Labels: documentation, solved in dev

#28 - Transfer review

Pull Request - State: closed - Opened by sylvinite about 3 years ago

#27 - Independent data file uploader

Issue - State: closed - Opened by sylvinite about 3 years ago

#26 - Debug messages are written per default

Issue - State: closed - Opened by pbiology about 3 years ago

#25 - fastq file can contain N

Pull Request - State: closed - Opened by hannasoderstrom1 about 3 years ago - 1 comment

#24 - bucket kwarg on HCPManager instantiation causes issues

Issue - State: closed - Opened by JPWerling about 3 years ago
Labels: bug

#23 - bugfixes in hcp.py:

Pull Request - State: closed - Opened by parlar about 3 years ago - 2 comments

#22 - Fixed f-string for search query

Pull Request - State: closed - Opened by pbiology about 3 years ago

#21 - Log transfer rates to file

Issue - State: closed - Opened by sylvinite about 3 years ago

#20 - Renamed package & more

Pull Request - State: closed - Opened by sylvinite about 3 years ago

#19 - no hcp section ...

Issue - State: closed - Opened by parlar about 3 years ago - 1 comment

#18 - errror creating HCPmanager instance

Issue - State: closed - Opened by parlar about 3 years ago - 3 comments

#17 - Move transfer config settings out of config.ini

Issue - State: closed - Opened by JPWerling about 3 years ago - 1 comment
Labels: bug

#16 - Generalise ProgressBar

Issue - State: closed - Opened by sylvinite about 3 years ago

#15 - Change name to NGPIris

Issue - State: closed - Opened by sylvinite about 3 years ago - 1 comment

#14 - Resolved multiple open issues

Pull Request - State: closed - Opened by sylvinite about 3 years ago - 3 comments

#13 - Metadata verifier

Issue - State: closed - Opened by sylvinite about 3 years ago - 1 comment
Labels: enhancement

#12 - Add log2file and log entries

Issue - State: closed - Opened by sylvinite about 3 years ago

#11 - Replace io name

Issue - State: closed - Opened by sylvinite about 3 years ago

#10 - Documentation

Pull Request - State: closed - Opened by sylvinite about 3 years ago

#9 - Required inputfields

Issue - State: closed - Opened by pbiology about 3 years ago

#8 - Package stuff

Pull Request - State: closed - Opened by sylvinite about 3 years ago

#7 - Package polishing

Pull Request - State: closed - Opened by sylvinite about 3 years ago

#6 - Polished up pretty much everything

Pull Request - State: closed - Opened by sylvinite about 3 years ago - 1 comment

#5 - Fix HCPManager upload/download not flushing stdout

Pull Request - State: closed - Opened by JPWerling about 3 years ago

#4 - Various functions from GBG

Pull Request - State: closed - Opened by sylvinite about 3 years ago

#3 - GBG into GMS

Pull Request - State: closed - Opened by sylvinite about 3 years ago

#2 - Dev hci

Pull Request - State: closed - Opened by vilmacanfjorden about 4 years ago

#1 - Dev hci

Pull Request - State: closed - Opened by vilmacanfjorden about 4 years ago

GitHub / genomic-medicine-sweden/NGPIris issues and pull requests