Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / vgteam/xg-old issues and pull requests

#70 - Revive libxg (1.11.0)

Pull Request - State: open - Opened by cartoonist about 6 years ago

#69 - add cast to compile on gcc7

Pull Request - State: closed - Opened by glennhickey over 7 years ago

#68 - XG does not compile with gcc7.1+matching glibc

Issue - State: open - Opened by JervenBolleman over 7 years ago - 4 comments

#67 - Reorder XG member variables initialization

Pull Request - State: closed - Opened by cartoonist over 7 years ago

#66 - Bug fix for oriented distance function

Pull Request - State: closed - Opened by jeizenga over 7 years ago

#65 - Name-based haplotype deduplication

Issue - State: open - Opened by adamnovak over 7 years ago

#64 - Coordinate GBWT

Issue - State: closed - Opened by adamnovak over 7 years ago - 1 comment

#63 - Add a versioning system for XG files.

Pull Request - State: closed - Opened by adamnovak over 7 years ago

#62 - Check versioning of xg index

Issue - State: closed - Opened by cmarkello over 7 years ago

#61 - Fix bugs preventing tests from passing

Pull Request - State: closed - Opened by adamnovak over 7 years ago - 1 comment

#60 - xg tests fail

Issue - State: closed - Opened by adamnovak over 7 years ago - 2 comments

#59 - Fix bugs in oriented distance function

Pull Request - State: closed - Opened by jeizenga over 7 years ago - 4 comments

#58 - Empty gPBWT is too big

Issue - State: open - Opened by adamnovak over 7 years ago

#57 - Update to latest vg.proto from vg

Pull Request - State: closed - Opened by edawson almost 8 years ago

#56 - Oriented distance estimator based on path index

Pull Request - State: closed - Opened by jeizenga almost 8 years ago

#54 - How to get sequence position at path node efficiently?

Issue - State: closed - Opened by subwaystation almost 8 years ago - 2 comments

#53 - xg segfaults building an index of an empty graph

Issue - State: open - Opened by adamnovak almost 8 years ago

#51 - Extend interface a little for vg chunk.

Pull Request - State: closed - Opened by glennhickey about 8 years ago

#50 - Add xg functionality needed for haplotype decompositions

Pull Request - State: closed - Opened by yoheirosen about 8 years ago - 3 comments

#49 - More api

Pull Request - State: closed - Opened by adamnovak about 8 years ago

#48 - Speed and correctness improvements

Pull Request - State: closed - Opened by adamnovak about 8 years ago - 2 comments

#47 - SDSL supports point to backing objects, breaking copy and move

Issue - State: closed - Opened by adamnovak about 8 years ago - 1 comment

#46 - Compress good

Pull Request - State: closed - Opened by adamnovak about 8 years ago

#45 - Improve memory safety for XGPaths

Pull Request - State: closed - Opened by adamnovak about 8 years ago - 1 comment

#44 - Memory leak: `XGPath`s are allocated but not destroyed

Issue - State: closed - Opened by adamnovak about 8 years ago - 1 comment

#43 - Fix distances for nodes with the same path node

Pull Request - State: closed - Opened by adamnovak about 8 years ago

#42 - Helping improve the mapper

Pull Request - State: open - Opened by ekg about 8 years ago

#41 - questions about xg data model format

Issue - State: open - Opened by ekg over 8 years ago - 2 comments

#40 - expand_context: performance and MEM-threader

Pull Request - State: closed - Opened by ekg over 8 years ago

#39 - Don't try to get nonexistent nodes in id ranges

Pull Request - State: closed - Opened by adamnovak over 8 years ago

#38 - Add edges between nodes found on the final step when expanding context

Pull Request - State: closed - Opened by adamnovak over 8 years ago - 1 comment

#37 - gPBWT build-time memory usage

Issue - State: open - Opened by ekg over 8 years ago

#36 - Concatenate xg indexes

Issue - State: open - Opened by ekg over 8 years ago

#35 - Paper gPBWT Implementation

Pull Request - State: closed - Opened by adamnovak over 8 years ago - 3 comments

#34 - remove debugging sanity check that got left in by mistake

Pull Request - State: closed - Opened by glennhickey over 8 years ago

#33 - Add interface to explore graphs using lengths in addtion to id space

Pull Request - State: closed - Opened by glennhickey over 8 years ago - 2 comments

#32 - Fix path range extraction

Pull Request - State: closed - Opened by adamnovak over 8 years ago

#31 - use sparse hash for bidirectional edge matrix

Pull Request - State: closed - Opened by ekg almost 9 years ago

#30 - construction memory usage

Issue - State: open - Opened by ekg almost 9 years ago

#29 - Sdsl reports

Pull Request - State: closed - Opened by adamnovak almost 9 years ago - 1 comment

#28 - Don't say all self loops exist

Pull Request - State: closed - Opened by adamnovak almost 9 years ago

#27 - Better messages

Pull Request - State: closed - Opened by adamnovak almost 9 years ago

#26 - Fix XG::path() for multi-base paths

Pull Request - State: closed - Opened by adamnovak almost 9 years ago

#25 - Dynamic serialization, optional thread inclusion

Pull Request - State: closed - Opened by adamnovak almost 9 years ago - 1 comment

#24 - Segfaults when moving XG objects

Issue - State: closed - Opened by adamnovak almost 9 years ago - 1 comment

#23 - Allow building from a callback

Pull Request - State: closed - Opened by adamnovak almost 9 years ago - 7 comments

#22 - testing removal of guard from path query code

Pull Request - State: closed - Opened by ekg almost 9 years ago

#21 - DYNAMIC can't be destroyed without segfault

Issue - State: closed - Opened by ekg almost 9 years ago

#20 - Add the DYNAMIC submodule, which was missing

Pull Request - State: closed - Opened by adamnovak almost 9 years ago

#19 - query a specific character in the graph without building a vg::Node

Pull Request - State: closed - Opened by ekg almost 9 years ago

#17 - Graph pbwt

Pull Request - State: closed - Opened by adamnovak almost 9 years ago

#16 - protobuf definition fixes from vg.

Pull Request - State: closed - Opened by macieksmuga almost 9 years ago

#15 - when verifying path validity, look for the reverse complement of edges

Pull Request - State: closed - Opened by ekg almost 9 years ago

#14 - Don't clobber CXX

Pull Request - State: closed - Opened by adamnovak almost 9 years ago - 1 comment

#13 - Indexing small graphs blows up when including many paths

Issue - State: open - Opened by edawson almost 9 years ago - 2 comments

#12 - Modified makefile to allow rebuilding deps without redownloading them…

Pull Request - State: closed - Opened by ekg about 9 years ago

#11 - Rationalize build process

Pull Request - State: closed - Opened by ekg about 9 years ago

#10 - support imperfect paths

Issue - State: open - Opened by ekg about 9 years ago

#9 - No way to get the mapping at a path position

Issue - State: closed - Opened by adamnovak about 9 years ago - 3 comments

#8 - Update to the latest protobuf

Pull Request - State: closed - Opened by adamnovak about 9 years ago

#7 - Grab edges between de-orphaning nodes in expand_context

Pull Request - State: closed - Opened by adamnovak over 9 years ago - 2 comments

#6 - Add missing checks to prevent selecting past the last rank when check…

Pull Request - State: closed - Opened by adamnovak over 9 years ago

#5 - paths are broken

Issue - State: closed - Opened by ekg over 9 years ago

#4 - Allow build on OSX

Pull Request - State: closed - Opened by glennhickey over 9 years ago - 2 comments

#3 - edge to/from interface should match that in vg (sides)

Issue - State: open - Opened by ekg over 9 years ago

#2 - cycles should be broken when building context

Issue - State: closed - Opened by ekg over 9 years ago

#1 - multiple hits for a path name that should not be duplicated

Issue - State: open - Opened by ekg over 9 years ago