oicr-ibc/heliotrope issues and pull requests

#73 - Regarding improved performance during cosmic.pl annotation phase

Issue - State: open - Opened by cookersjs almost 8 years ago - 5 comments

#72 - No PBB tag/template found in JSON file --wikipedia.pl

Issue - State: closed - Opened by cookersjs almost 8 years ago - 1 comment

#71 - Pre-built Knowledge Base Packs

Issue - State: closed - Opened by cookersjs almost 8 years ago - 4 comments

#70 - Initializing Knowledge Base

Issue - State: open - Opened by cookersjs almost 8 years ago - 7 comments

#69 - Replace the VCF handling with the now-CPAN VCF module

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: task

#68 - Ensure stable testing of both front and back end systems

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: task

#67 - Rework import processes for VCF and SEG files

Issue - State: open - Opened by morungos about 8 years ago - 1 comment

#66 - Update the import process for Wikipedia gene descriptions

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: task

#65 - Update the import process for Entrez

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: task

#64 - Update the import process for the Sanger Cancer Gene Census

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: task

#63 - Update the import process for COSMIC

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: task

#62 - Add a "patient view"

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: enhancement

#61 - Modify the visual design so it isn't vanilla Bootstrap

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: enhancement

#60 - Rewrite reporting using PDFkit

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: enhancement

#59 - Update the front-end build to use browserify

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: task

#58 - Update the import process for Ensembl

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: task

#57 - Remove the workflow and sample layers

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: task

#56 - Switch to use promises

Issue - State: closed - Opened by morungos about 8 years ago
Labels: duplicate

#55 - Switch to use promises

Issue - State: open - Opened by morungos about 8 years ago - 1 comment
Labels: enhancement

#54 - Add domain descriptions in the protein view

Issue - State: open - Opened by morungos about 10 years ago - 1 comment

#53 - Bubble diagram text doesn't scale in Firefox

Issue - State: closed - Opened by morungos about 10 years ago - 1 comment

#52 - Add annotation logging and digital signing

Issue - State: open - Opened by morungos about 10 years ago - 1 comment

#51 - Switch to init.d from upstart

Issue - State: closed - Opened by morungos about 10 years ago - 2 comments

#50 - Login link no longer works

Issue - State: closed - Opened by morungos about 10 years ago

#49 - Build problem using vagrant

Issue - State: closed - Opened by iborozan about 10 years ago - 1 comment

#48 - Restore COSMIC automated download and checking

Issue - State: closed - Opened by morungos about 10 years ago

#47 - Add GPL3 and copyright headers to all files

Issue - State: closed - Opened by morungos about 10 years ago - 1 comment

#46 - Refactor clinical information for annotation into a separate collection

Issue - State: closed - Opened by morungos about 10 years ago - 2 comments

#45 - Logging in feedback on both success and failure is broken

Issue - State: closed - Opened by morungos about 10 years ago - 2 comments

#44 - Fix publication handling

Issue - State: closed - Opened by morungos about 10 years ago

#43 - Fix query plan in Heliotrope::Update::Ensembl

Issue - State: closed - Opened by morungos over 10 years ago - 1 comment

#42 - After "vagrant up", https://localhost:8888 through browser returns 502

Issue - State: closed - Opened by rdeborja over 10 years ago - 6 comments
Labels: bug

#41 - Add more substantial data into the demonstration

Issue - State: closed - Opened by morungos over 10 years ago

#40 - Proxy settings for Vagrant handling downloads

Issue - State: closed - Opened by morungos about 11 years ago - 1 comment

#39 - RangeError in the protein viewer

Issue - State: closed - Opened by morungos about 11 years ago
Labels: bug

#38 - Fatal error for some diagrams

Issue - State: closed - Opened by morungos about 11 years ago - 1 comment
Labels: bug

#37 - Diagrams not showing for indels versus snvs

Issue - State: closed - Opened by morungos about 11 years ago - 2 comments
Labels: bug

#36 - Uploading sample results allows PDF file upload

Issue - State: open - Opened by morungos about 11 years ago - 3 comments
Labels: bug

#35 - Add a documentation string for steps, as guiding text

Issue - State: closed - Opened by morungos about 11 years ago
Labels: enhancement

#34 - Adding a new sample allows a missing barcode

Issue - State: closed - Opened by morungos about 11 years ago
Labels: bug

#33 - Add a loading spinner

Issue - State: closed - Opened by morungos about 11 years ago
Labels: enhancement

#32 - Admin access doesn't allow access to steps

Issue - State: closed - Opened by morungos about 11 years ago
Labels: bug

#31 - Authentication service returns 500

Issue - State: closed - Opened by morungos about 11 years ago - 1 comment
Labels: bug

#30 - Initial data: initially no studies are defined

Issue - State: closed - Opened by morungos about 11 years ago

#29 - Switch to port 8080 for Vagrant initial deployment

Issue - State: closed - Opened by morungos about 11 years ago

#28 - The report PDF generated is not openable by Preview on the Mac

Issue - State: closed - Opened by morungos about 11 years ago - 2 comments
Labels: bug

#27 - Add participants page is empty with only a "/" and a save button

Issue - State: closed - Opened by morungos about 11 years ago - 2 comments
Labels: bug

#26 - Search for "kras" returns no results

Issue - State: closed - Opened by morungos about 11 years ago - 1 comment
Labels: bug

#25 - Add more developer-oriented docs

Issue - State: closed - Opened by morungos about 11 years ago - 1 comment
Labels: task

#24 - Add wildcards to search

Issue - State: closed - Opened by morungos about 11 years ago
Labels: enhancement

#23 - Report downloads fail through reverse proxy

Issue - State: closed - Opened by morungos about 11 years ago
Labels: bug

#22 - Allow databases to be selected in config.json

Issue - State: closed - Opened by morungos about 11 years ago
Labels: enhancement

#21 - Add users and user management into Mongo data

Issue - State: closed - Opened by morungos about 11 years ago
Labels: task

#20 - Rewrite the ReferenceSequenceEngine to use Bio::DB::Fasta

Issue - State: closed - Opened by morungos about 11 years ago

#19 - Bug in Ensembl data extraction

Issue - State: closed - Opened by morungos about 11 years ago - 1 comment

#18 - Correct dropdown chooser data for entity references

Issue - State: closed - Opened by morungos about 11 years ago
Labels: bug

#17 - Remove selectboxit, which we really don't want as well as select2

Issue - State: closed - Opened by morungos about 11 years ago
Labels: bug

#16 - Error in display of users in the step history

Issue - State: closed - Opened by morungos about 11 years ago
Labels: bug

#15 - Reduce the frequencies shown for a variant

Issue - State: closed - Opened by morungos about 11 years ago - 2 comments
Labels: enhancement

#14 - Clean up variants without an amino acid mutation

Issue - State: closed - Opened by morungos over 11 years ago
Labels: enhancement

#13 - Make the services more expressy

Issue - State: closed - Opened by morungos over 11 years ago - 1 comment
Labels: task

#12 - Domain chart structure missing from the gene page

Issue - State: closed - Opened by morungos over 11 years ago
Labels: bug

#11 - Domain overlap issue in charts

Issue - State: closed - Opened by morungos over 11 years ago
Labels: bug

#10 - Switch to select2 for dropdowns

Issue - State: closed - Opened by morungos over 11 years ago - 1 comment
Labels: enhancement

#9 - Add form validation framework

Issue - State: closed - Opened by morungos over 11 years ago - 2 comments
Labels: enhancement

#8 - Modify vcf plugin to create missing variant KB records with genomic info

Issue - State: closed - Opened by morungos over 11 years ago
Labels: enhancement

#7 - Remove hard-wired study structures and replace with generic pages

Issue - State: closed - Opened by morungos over 11 years ago
Labels: bug

#6 - Retrofit chart from the back-end to the knowledge base pages

Issue - State: closed - Opened by morungos over 11 years ago
Labels: task

#5 - Add appropriate documentation

Issue - State: closed - Opened by morungos over 11 years ago - 3 comments
Labels: task

#4 - Debian packaging system

Issue - State: closed - Opened by morungos over 11 years ago - 1 comment
Labels: enhancement

#3 - Study administration interface

Issue - State: closed - Opened by morungos over 11 years ago - 2 comments
Labels: enhancement

#2 - Add authorization, including per-study roles

Issue - State: closed - Opened by morungos over 11 years ago - 2 comments
Labels: enhancement

#1 - Add authentication using interceptors

Issue - State: closed - Opened by morungos over 11 years ago
Labels: enhancement

GitHub / oicr-ibc/heliotrope issues and pull requests