diff --git a/CITATION.cff b/CITATION.cff index 3b18e1f..73e3353 100644 --- a/CITATION.cff +++ b/CITATION.cff @@ -10,7 +10,7 @@ authors: title: CBMPy MetaDraft version: 0.9.2 doi: 10.5281/zenodo.2398336 -date-released: 2019-05-18 +date-released: 2019-08-08 repository-code: https://github.com/SystemsBioinformatics/cbmpy-metadraft keywords: - "genome scale reconstruction" diff --git a/INSTALL.txt b/INSTALL.txt index 74fe7d0..37924f3 100644 --- a/INSTALL.txt +++ b/INSTALL.txt @@ -12,4 +12,4 @@ look in the help-->syslog menu for error messages. Or in the log subdirectory. Please read and agree with the LICENCE.txt for usage and distribution. -(c) Brett G. Olivier, Amsterdam, 2016-2017, all rights reserved. +(c) Brett G. Olivier, Amsterdam, 2016-2019, all rights reserved. diff --git a/README.md b/README.md index 40df8e3..a6912a8 100644 --- a/README.md +++ b/README.md @@ -94,7 +94,7 @@ or individually install the core packages (minimal): Please cite this software if you use it (the author(s) enthusiasm to carry on maintaining this project depend on it), see CITATION.cff for more details. ```text - Brett G. Olivier. (2018, December 18). + Brett G. Olivier. (2019, October 8). SystemsBioinformatics/cbmpy-metadraft: Metadraft. Zenodo. http://doi.org/10.5281/zenodo.2398336 ``` diff --git a/conda_env_build_ubuntu.yml b/conda_env_build_ubuntu.yml index 73b9134..fd38706 100644 --- a/conda_env_build_ubuntu.yml +++ b/conda_env_build_ubuntu.yml @@ -4,7 +4,7 @@ channels: - bgoli - defaults dependencies: - - cbmpy=0.7.21=py27_0 + - cbmpy=0.7.25=py27_0 - backports=1.0=py27_1 - backports.functools_lru_cache=1.5=py27_1 - backports_abc=0.5=py27_0 diff --git a/conda_env_build_win.yml b/conda_env_build_win.yml index fdb8574..3a6434a 100644 --- a/conda_env_build_win.yml +++ b/conda_env_build_win.yml @@ -4,7 +4,7 @@ channels: - bgoli - defaults dependencies: - - cbmpy=0.7.21=py27_0 + - cbmpy=0.7.25=py27_0 - backports=1.0=py27_1 - backports.functools_lru_cache=1.5=py27_1 - backports_abc=0.5=py27h0ec6b72_0 diff --git a/conda_env_build_win_py3.yml b/conda_env_build_win_py3.yml index 8d98497..77f372d 100644 --- a/conda_env_build_win_py3.yml +++ b/conda_env_build_win_py3.yml @@ -4,7 +4,7 @@ channels: - bgoli - defaults dependencies: - - cbmpy=0.7.21=py36_0 + - cbmpy=0.7.25=py36_0 - backcall=0.1.0=py36_0 - biopython=1.72=py36h830ac7b_0 - blas=1.0=mkl diff --git a/libpython/__init__.py b/libpython/__init__.py index 5f29bc1..c4e664b 100644 --- a/libpython/__init__.py +++ b/libpython/__init__.py @@ -5,7 +5,7 @@ MetaDraft: for the reconstruction of Genome Scale Models MetaToolkit: MetaDraft (https://github.com/SystemsBioinformatics/cbmpy-metadraft) -Copyright (C) 2016-2018 Brett G. Olivier, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands +Copyright (C) 2016-2019 Brett G. Olivier, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by @@ -23,4 +23,4 @@ Author: Brett G. Olivier PhD Contact email: b.g.olivier@vu.nl -""" \ No newline at end of file +""" diff --git a/libpython/report_templates.py b/libpython/report_templates.py index 36b2974..b66e481 100644 --- a/libpython/report_templates.py +++ b/libpython/report_templates.py @@ -5,7 +5,7 @@ MetaDraft: for the reconstruction of Genome Scale Models MetaToolkit: MetaDraft (https://github.com/SystemsBioinformatics/cbmpy-metadraft) -Copyright (C) 2016-2018 Brett G. Olivier, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands +Copyright (C) 2016-2019 Brett G. Olivier, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by diff --git a/metadraft.py b/metadraft.py index bbc184f..8a1c642 100644 --- a/metadraft.py +++ b/metadraft.py @@ -5,7 +5,7 @@ MetaDraft: for the reconstruction of Genome Scale Models MetaToolkit: MetaDraft (https://github.com/SystemsBioinformatics/cbmpy-metadraft) -Copyright (C) 2016-2018 Brett G. Olivier, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands +Copyright (C) 2016-2019 Brett G. Olivier, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by @@ -31,7 +31,7 @@ def run_metadraft(): app = QApplication(sys.argv) widget_splash = QSplashScreen(QPixmap("images/metatoolkit1-03.jpg")) widget_splash.show() - widget_splash.showMessage("Ver {}-({})\nAuthor: Brett G. Olivier\n(c) Systems Bioinformatics, VU University Amsterdam, Amsterdam, 2017-2018.\nSee Help - About for more details.".format(metadraft_version, cbmpy.__version__), alignment=Qt.AlignBottom) + widget_splash.showMessage("Ver {}-({})\nAuthor: Brett G. Olivier\n(c) Systems Bioinformatics, VU University Amsterdam, Amsterdam, 2017-2019.\nSee Help - About for more details.".format(metadraft_version, cbmpy.__version__), alignment=Qt.AlignBottom) time.sleep(2) ex = MetaDraftApp() widget_splash.finish(ex) diff --git a/requirements.txt b/requirements.txt index b00dc3f..eddee3e 100644 --- a/requirements.txt +++ b/requirements.txt @@ -1,26 +1,26 @@ -backcall==0.1.0 -biopython==1.72 -cbmpy==0.7.21 -certifi==2018.10.15 -colorama==0.4.0 -decorator==4.3.0 -ipython==7.1.1 -ipython-genutils==0.2.0 -jedi==0.13.1 -numpy==1.15.4 +backcall>=0.1.0 +biopython>=1.72 +cbmpy>=0.7.25 +certifi>=2018.10.15 +colorama>=0.4.0 +decorator>=4.3.0 +ipython>=7.1.1 +ipython-genutils>=0.2.0 +jedi>=0.13.1 +numpy>=1.15.4 nose>=1.3.7 -parso==0.3.1 -pickleshare==0.7.5 -prompt-toolkit==2.0.7 -Pygments==2.2.0 +parso>=0.4.0 +pickleshare>=0.7.5 +prompt-toolkit>=2.0.7 +Pygments>=2.2.0 pyparsing>=2.3.0 -PyQt5==5.11.3 -PyQt5-sip==4.19.13 +PyQt5>=5.11.3 +PyQt5-sip>=4.19.13 python-libsbml>=5.17.0 -sip==4.19.8 -six==1.11.0 -traitlets==4.3.2 -wcwidth==0.1.7 -wincertstore==0.2 -xlrd==1.1.0 -xlwt==1.3.0 +sip>=4.19.8 +six>=1.11.0 +traitlets>=4.3.2 +wcwidth>=0.1.7 +wincertstore>=0.2 +xlrd>=1.1.0 +xlwt>=1.3.0 diff --git a/systemtest.py b/systemtest.py index 7f80588..99286bc 100644 --- a/systemtest.py +++ b/systemtest.py @@ -5,7 +5,7 @@ MetaDraft: for the reconstruction of Genome Scale Models MetaToolkit: MetaDraft (https://github.com/SystemsBioinformatics/cbmpy-metadraft) -Copyright (C) 2016-2018 Brett G. Olivier, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands +Copyright (C) 2016-2019 Brett G. Olivier, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by