Hydraulic conductivity technical note

<p>Experimental data and code related to paper "<strong>A new experimental setup to measure hydraulic conductivity of plant segments":</strong> <a href="https://doi.org/10.1093/aobpla/plad024">https://doi.org/10.1093/aobpla/plad024</a></p><p>The interactive version can be found at: https://renkulab.io/projects/louis.krieger/hydraulic-conductivity-technical-note</p><p>Once there, you can start the project and interact.</p><p>If you would like to run it locally in a python 3.6 environment, you will need to install the <a href="https://renkulab.io/gitlab/louis.krieger/hydraulic-conductivity-technical-note/-/blob/cc1a351b1fb6e2a731fcc22d1fb406bd92d1ceb1/requirements.txt">requirements.txt</a> before using notebooks.</p><p>&nbsp;</p><p><strong>Contents:</strong></p><p>All <a href="https://renkulab.io/gitlab/louis.krieger/hydraulic-conductivity-technical-note/-/blob/cc1a351b1fb6e2a731fcc22d1fb406bd92d1ceb1/renku_commands">renku commands</a> are run from the home folder of the repository to create the graphs and the paper itself.</p><p>First the <a href="https://renkulab.io/gitlab/louis.krieger/hydraulic-conductivity-technical-note/-/blob/cc1a351b1fb6e2a731fcc22d1fb406bd92d1ceb1/notebooks/extra_calculations/Intrinsic_permeability.ipynb">equations</a> used in other notebooks were derived and exported.</p><p>Then the <a href="https://renkulab.io/gitlab/louis.krieger/hydraulic-conductivity-technical-note/-/blob/cc1a351b1fb6e2a731fcc22d1fb406bd92d1ceb1/notebooks/calibrations/P_sensor_calibration.ipynb">calibrations of the pressure sensors</a> were run.</p><p>Next the graph are created from the notebook <a href="https://renkulab.io/gitlab/louis.krieger/hydraulic-conductivity-technical-note/-/blob/cc1a351b1fb6e2a731fcc22d1fb406bd92d1ceb1/notebooks/paper/graphs_for_paper.ipynb">graphs_for_paper.ipynb</a> using the first renku command.</p><p>Followed by using those graphs to compile the paper itself from <a href="https://renkulab.io/gitlab/louis.krieger/plantwatertransport/-/blob/498ceaa281eda57ba6f53eb015d722182a142d80/writing/paper1/paper1.tex">paper1.tex</a> with the second command.</p><p>Finally, the <a href="https://renkulab.io/gitlab/louis.krieger/hydraulic-conductivity-technical-note/-/blob/cc1a351b1fb6e2a731fcc22d1fb406bd92d1ceb1/paper/SI.tex">SI latex</a> is created from the <a href="https://renkulab.io/gitlab/louis.krieger/hydraulic-conductivity-technical-note/-/blob/cc1a351b1fb6e2a731fcc22d1fb406bd92d1ceb1/notebooks/paper/SI.ipynb">notebook itself</a>.</p><p>Additional notebooks where the graphs are a bit more in context can be found in the <a href="https://renkulab.io/gitlab/louis.krieger/hydraulic-conductivity-technical-note/-/tree/cc1a351b1fb6e2a731fcc22d1fb406bd92d1ceb1/notebooks/additional_notebooks">subfolder in notebooks</a>:</p><p>All the <a href="https://renkulab.io/projects/louis.krieger/hydraulic-conductivity-technical-note/files/blob/data/my_data">raw data files</a> are also available, as well as <a href="https://renkulab.io/gitlab/louis.krieger/hydraulic-conductivity-technical-note/-/tree/cc1a351b1fb6e2a731fcc22d1fb406bd92d1ceb1/paper/images">additional images</a> used in the write-ups.</p><p>&nbsp;</p>