- Nov 19, 2021
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Studer Gabriel authored
blastall is legacy
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- Dec 18, 2019
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Xavier Robin authored
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- Nov 28, 2019
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Studer Gabriel authored
This only happens when running the unit tests due to increased log levels. These warnings could manually be triggered for normal scripts with: python -Wd world_domination.py.
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- Nov 27, 2019
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Studer Gabriel authored
Don't ask, just feels better that way
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- Nov 20, 2019
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Studer Gabriel authored
This enables string encoding in passed streams => stdout and stderr
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- Nov 13, 2019
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Studer Gabriel authored
This commit doesn't make OpenStructure work with Python 3. The goal of this commit was to perform an automated port of the Python code and make it compile. The performed steps: - Edited CMakeLists.txt to search for Python with 3.6 as min version 3.6 is the Python version shipped by default with Ubuntu 18.04 LTS - Add version 3.6 to cmake_support/FindPython.cmake - Adapt setup_boost macro in cmake_support/OST.cmake to prefer versioned libraries and not first check for boost_python.so. In the example of Ubuntu 18.04, libboost_python.so is specific for Python 2 but libboost_python3.so is the one we want. - apply the following command: 2to3-2.7 -n -w <OST_DIR> - adapt base/pymod/wrap_base.cc, gui/pymod/wrap_gui.cc and gui/pymod/export_message_widget.cc as PyString functionalities do not exist anymore in the Python 3 interpreter (replaced by PyUnicode) - adapt gui/src/python_shell/python_interpreter_worker.hh to resolve issue discussed in https://stackoverflow.com/questions/23068700/embedding-python3-in-qt-5 Long story short: Qt does a typedef for "slots" which causes trouble with other headers that are pulled in from the Python interpreter
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- Jan 16, 2019
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Studer Gabriel authored
Newer version have a hard limit for maximum file size that has been exceeded by the arguments provided by the blast binding. We simply use the default instead. Thanks to Andrius Merkys for the proposed fix.
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Studer Gabriel authored
Some BLAST version have a leading whitespace, the regex didn't match in those cases. Thanks to Andrius Merkys for the proposed fix.
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- Jun 17, 2014
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Bienchen authored
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- Feb 06, 2013
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Gabriel Studer authored
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- Jan 15, 2013
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Gabriel Studer authored
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- Oct 26, 2012
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Gabriel Studer authored
environment. The problem is, that wu-blast gets called when calling blastp.
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- Oct 25, 2012
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Bienchen authored
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Gabriel Studer authored
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Gabriel Studer authored
as the old ones. It is now possible to create new blastdatabases and the property seqid has been added to the aligned patches.
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- Jun 12, 2012
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Marco Biasini authored
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- Jun 10, 2012
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Marco Biasini authored
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- Feb 10, 2012
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Tobias Schmidt authored
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- Apr 19, 2011
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Marco Biasini authored
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- Feb 08, 2011
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Marco Biasini authored
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