Ecosyste.ms: Issues

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

GitHub / rosalindfranklininstitute/parakeet issues and pull requests

#76 - mrcfile 1.5.3 version incompatibilty

Issue - State: open - Opened by MJoosten 20 days ago - 3 comments

#74 - Update __init__.py

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

#70 - Issue 61

Pull Request - State: closed - Opened by jmp1985 about 1 year ago

#69 - Enable add_molecules to be called multiple times

Pull Request - State: closed - Opened by jmp1985 about 1 year ago

#68 - Make simplified API for including in algorithms

Issue - State: open - Opened by jmp1985 about 1 year ago
Labels: enhancement

#67 - Improve API for integration with Scipion

Issue - State: open - Opened by jmp1985 about 1 year ago
Labels: enhancement

#66 - Improve API for integration with CCPEM

Issue - State: open - Opened by jmp1985 about 1 year ago
Labels: enhancement

#65 - Implement hybrid simulation methods

Issue - State: open - Opened by jmp1985 about 1 year ago
Labels: enhancement

#64 - Improve beam damage modelling

Issue - State: open - Opened by jmp1985 about 1 year ago
Labels: enhancement

#63 - Improve sample modelling

Issue - State: open - Opened by jmp1985 about 1 year ago
Labels: enhancement

#62 - Add absorption potential

Issue - State: open - Opened by jmp1985 about 1 year ago
Labels: enhancement

#61 - Expose configuration for objective aperature diameter

Issue - State: closed - Opened by jmp1985 about 1 year ago
Labels: enhancement

#60 - Test

Issue - State: closed - Opened by jmp1985 over 1 year ago

#59 - Enable intermediate inspection of simulated images

Issue - State: open - Opened by jmp1985 over 1 year ago
Labels: enhancement

#58 - Add function to export sample coords to PDB/CIF format

Issue - State: open - Opened by jmp1985 over 1 year ago
Labels: enhancement

#57 - Can't run add_molecules more than once

Issue - State: closed - Opened by jmp1985 over 1 year ago
Labels: bug

#56 - Add ability to set GPU ID

Pull Request - State: closed - Opened by jmp1985 over 1 year ago

#55 - Specifying GPU ID

Issue - State: open - Opened by MohamadHarastani over 1 year ago - 7 comments
Labels: enhancement

#54 - Resources temporary unavailable

Issue - State: closed - Opened by MohamadHarastani over 1 year ago - 4 comments
Labels: bug

#53 - New Pydantic v2.0 breaks parakeet

Issue - State: closed - Opened by DimitriosBellos over 1 year ago - 2 comments

#52 - doppio beta tag causing unknown pip installation error

Issue - State: closed - Opened by JatGreer over 1 year ago - 4 comments

#51 - Cbed

Pull Request - State: closed - Opened by jmp1985 almost 2 years ago

#50 - Add a grid scan

Pull Request - State: closed - Opened by jmp1985 almost 2 years ago

#49 - Problem with "extended_header" in parakeet.export

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

#47 - Unrealistic noise level when pixel value is other than 1 Angstrom

Issue - State: open - Opened by MohamadHarastani almost 2 years ago - 9 comments
Labels: bug

#46 - Improve custom sample potential stuff

Issue - State: open - Opened by jmp1985 almost 2 years ago
Labels: enhancement

#45 - Simulation padding of 0 removes image (due to array slicing)

Issue - State: closed - Opened by JatGreer almost 2 years ago - 1 comment

#44 - Documentation Update - Docker, Singularity, Baskerville

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

#43 - Add movie frames

Pull Request - State: closed - Opened by jmp1985 about 2 years ago

#42 - Fix for python3.6

Pull Request - State: closed - Opened by jmp1985 about 2 years ago

#41 - A few bugs

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

#40 - Method fails when DQE is set to true

Issue - State: closed - Opened by MohamadHarastani about 2 years ago - 1 comment

#39 - Dose symmetry does not work as expected

Issue - State: closed - Opened by MohamadHarastani about 2 years ago - 3 comments

#38 - Mention of non-python dependancies in README.md

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

#37 - Add profet

Pull Request - State: closed - Opened by jmp1985 over 2 years ago

#36 - Implement beam tilt scan

Pull Request - State: closed - Opened by jmp1985 over 2 years ago

#35 - Pipeliner metadata

Pull Request - State: closed - Opened by jmp1985 over 2 years ago

#34 - Add model for defocus gradient

Pull Request - State: closed - Opened by as2875 over 2 years ago

#33 - Installation on CentOS Linux

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

#32 - Refactor sim

Pull Request - State: closed - Opened by jmp1985 over 2 years ago
Labels: enhancement

#31 - Update io

Pull Request - State: closed - Opened by jmp1985 over 2 years ago

#30 - Inelastic

Pull Request - State: closed - Opened by jmp1985 over 2 years ago

#26 - Fix lgtm warnings

Pull Request - State: closed - Opened by jmp1985 almost 3 years ago

#25 - Update api

Pull Request - State: closed - Opened by jmp1985 almost 3 years ago

#24 - Support for Docker and Singularity

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

#22 - Improve python API

Issue - State: closed - Opened by jmp1985 about 3 years ago

#21 - Add ability to export corrected mrc file to HDF5

Issue - State: open - Opened by jmp1985 about 3 years ago - 2 comments
Labels: enhancement

#19 - Wrapper for guanaco.correct_file in parakeet

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

#18 - 3D CTF correction and reconstruction as separate steps

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

#16 - Better documentation for how to simulate a tilt series

Issue - State: closed - Opened by jmp1985 over 3 years ago

#15 - Add documentation of reconstruction to README

Issue - State: closed - Opened by jmp1985 over 3 years ago
Labels: documentation

#14 - The parakeet.simulate.exit_wave does not work on the GPU

Issue - State: closed - Opened by DimitriosBellos over 3 years ago - 1 comment

#13 - CPU only install

Issue - State: open - Opened by alisterburt over 3 years ago - 1 comment
Labels: enhancement

#12 - Single particle metadata

Pull Request - State: closed - Opened by alisterburt over 3 years ago - 6 comments

#11 - Recent updates appear to have broken *something*

Issue - State: closed - Opened by alisterburt over 3 years ago - 13 comments

#10 - [WIP] minimal changes for a working single particle simulator

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

#9 - [WIP] Proposed scan interface

Pull Request - State: closed - Opened by alisterburt over 3 years ago - 1 comment

#8 - Allow multiple copies of molecule from any pdb file

Issue - State: closed - Opened by jmp1985 over 3 years ago

#7 - Allow any rotation axis

Issue - State: closed - Opened by jmp1985 over 3 years ago - 1 comment
Labels: bug

#6 - undefined symbol errors on extension import

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

#5 - outdated entry points in README

Issue - State: closed - Opened by alisterburt over 3 years ago

#4 - New analyse functionality

Pull Request - State: closed - Opened by DimitriosBellos over 3 years ago

#3 - New analyse functionality

Pull Request - State: closed - Opened by DimitriosBellos over 3 years ago

#2 - New analyse functionality

Pull Request - State: closed - Opened by DimitriosBellos over 3 years ago