Ecosyste.ms: Issues

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GitHub / libnano/primer3-py issues and pull requests

#143 - Bump actions/download-artifact from 3 to 4.1.7 in /.github/workflows

Pull Request - State: open - Opened by dependabot[bot] 25 days ago - 1 comment
Labels: dependencies

#141 - Negative Tm with thermodynamic calculations

Issue - State: closed - Opened by cesimsek 6 months ago - 2 comments

#136 - 2.0.3 release

Pull Request - State: closed - Opened by benpruitt 8 months ago

#134 - Clarify how to replace setGlobals as of v1.0.0

Pull Request - State: closed - Opened by peterjc 8 months ago

#133 - Replacement for primer3.primerdesign.setGlobals unclear

Issue - State: closed - Opened by peterjc 8 months ago - 11 comments

#132 - Highlight removal of camelCase aliases in v2.0.0

Pull Request - State: closed - Opened by peterjc 8 months ago - 2 comments

#130 - 2.0.2 release

Pull Request - State: closed - Opened by benpruitt 8 months ago

#129 - Support for python 3.12 (build, test, docs)

Pull Request - State: closed - Opened by benpruitt 8 months ago

#128 - Issues installing on windows10 x86-64

Issue - State: closed - Opened by lucienalperstein 8 months ago - 4 comments

#127 - Installation of primer3-py via Conda on Python 3.8, 3.9, and 3.10

Issue - State: closed - Opened by akikuno 9 months ago - 16 comments

#126 - primer3.bindings.design_primers causes kernel crash

Issue - State: closed - Opened by 25shmeckles 11 months ago - 5 comments

#125 - primer3.design_primers -> primer3.designPrimers

Issue - State: closed - Opened by Lcarey about 1 year ago - 2 comments

#124 - 2.0.1 release

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

#123 - Fix ``todict`` method of ``Thermoanalysis`` and add unit test coverage

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

#122 - minor bug in primer3/thermoanalysis.pyx

Issue - State: closed - Opened by martinfthomsen about 1 year ago - 1 comment

#121 - calc_heterodimer fails on longer sequences

Issue - State: closed - Opened by martinfthomsen about 1 year ago - 2 comments

#120 - import errors when testing

Issue - State: closed - Opened by doronbehar about 1 year ago - 2 comments

#119 - fix c99 limit building problem

Pull Request - State: open - Opened by liuxiawei about 1 year ago - 3 comments

#118 - Missing space in change-log

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

#117 - cannot import name 'thermoanalysis'

Issue - State: closed - Opened by ericeric0101 about 1 year ago - 3 comments

#116 - Removed output dictionary keys?

Issue - State: closed - Opened by DNAanalytics about 1 year ago - 7 comments

#115 - calc tm breaks with lower case input

Issue - State: closed - Opened by Tim-Kirkwood over 1 year ago - 1 comment

#114 - (v0.6.1) Bindings fail in python 3.10?

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

#113 - 2.0.0 release

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

#111 - Error:free(): invalid pointer

Issue - State: closed - Opened by liuzy2008 over 1 year ago - 5 comments

#110 - Nested structure for primer results

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

#108 - calc_hairpin() `structure_found == True` even no hairpin structure?

Issue - State: closed - Opened by GuoYu-Peng over 1 year ago - 1 comment

#107 - max_loop has no effect or am I understanding wrong?

Issue - State: closed - Opened by GuoYu-Peng over 1 year ago - 1 comment

#106 - Design output dictionary related bug fixes

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

#105 - calc_hairpin() returns all possible results and add min_loop params?

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

#104 - fix python dict conversion of design output in `thermoanalysis.pyx`

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

#103 - bug fixes for issue 101. `pdh_create_seq_lib` to correct missing (#102)

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

#102 - bug fixes for issue 101. `pdh_create_seq_lib` to bug fixes

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

#101 - Giving a dict to `misprime_lib` causes `OSError`

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

#100 - migrated primer3 header file Cython extern imports to `thermoanalysis.pxi`

Pull Request - State: closed - Opened by grinner over 1 year ago - 5 comments

#99 - setup.py error!!!!!!!!!!!!!!!!!!!!!!!!

Issue - State: closed - Opened by kevin2022lee over 1 year ago - 3 comments

#98 - 1.2.0 release

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

#97 - Updated for 1.2.0 release info

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

#96 - `ThermalAnalysis.run_design` is now thread-safe

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

#95 - Building the sdist fails as header is missing : v1.1.0

Issue - State: closed - Opened by ccoulombe over 1 year ago - 3 comments

#94 - thread-safe `thal.c` code and `nogil` updates for `ThermoAnalysis`

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

#93 - `p3helpers.pyx` houses new sequence and design helper functions

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

#91 - 1.1.0 release

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

#90 - Version bump to 1.1.0 and `CHANGES` update

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

#89 - python 3.8 wheel support

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

#88 - Wheels for python 3.8

Issue - State: closed - Opened by elliot-hallmark over 1 year ago - 1 comment

#87 - added specificity to error non-N IUPAC error for issue 59

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

#86 - Removed `conda install` instructions in `quickstart.md` and fix typo

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

#85 - v1.0.0 `__version__` update

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

#84 - 1.0.0 version update

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

#82 - Fix PyPi Python build version

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

#80 - `MANIFEST` file update to ensure build and that files are not missing

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

#79 - Misc. documentation + import fixes

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

#78 - Windows test compatibility

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

#77 - Added `examples/` folder with 2 sample modules

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

#76 - Fix windows build

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

#75 - documentation updates pass 2 for `1.0.0-staging`

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

#74 - Test coverage improvements

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

#73 - docs update for 1.0.0 and conversion from Sphinx ReST to MyST

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

#72 - code clarity and comments update. `*_main.c` argument parsing fixes

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

#70 - merged `primerdesign.pyx` into `thermoanalysis.pyx`.

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

#68 - `kw_only` dataclass fix primer3 py arguments

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

#67 - Remove `PRIMER3HOME` in favor of package-relative paths

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

#66 - Unify global defaults in new `argdefaults.py` module.

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

#65 - type hinting, `cython` style update, `pre-commit` `mypy`

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

#64 - `isort` added to `pre-commit` hooks

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

#63 - `pre-commit` hooks initial and GitHub Action transition from Travis

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

#62 - add .whl files for python 3.9 and 3.10 in windows

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

#61 - How to know which part is the hairpin sequence?

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

#60 - Cannot input list of ranges

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

#59 - Message "Unrecognized base in input sequence" omits problem char

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

#58 - Wheels for python 3.9+

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

#57 - Can `primer3-py` support the degenerate base design ?

Issue - State: closed - Opened by kevin2022lee about 2 years ago - 8 comments

#56 - primer3 2.6.0 feature

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

#55 - bad link in quickstart documentation

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

#54 - Fix typo

Pull Request - State: closed - Opened by peterjc over 2 years ago - 1 comment

#53 - ctypes version is a little faster

Issue - State: closed - Opened by chenzhiw over 2 years ago - 3 comments

#52 - Mispriming library causes primer3-py to crash

Issue - State: closed - Opened by danxfreeman over 2 years ago - 3 comments

#51 - SEQUENCE_OVERLAP_JUNCTION_LIST

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

#50 - Nested structure for primer results

Issue - State: closed - Opened by peterjc over 3 years ago - 6 comments

#49 - primer3 moved from sourceforge to GitHub

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

#48 - Update to 2.5.0

Pull Request - State: closed - Opened by jsnedeco over 3 years ago - 2 comments

#47 - Documentation issues

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

#46 - add calcEndStability to __init__.py

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

#45 - Fix minor typo: pervious -> previous

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

#44 - Different dimers from ntthal

Issue - State: closed - Opened by billzt almost 4 years ago - 1 comment