Unifying names

bioexcel · Jun 3, 2024 · d7a8394 · d7a8394
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commit d7a8394
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Showing 12 changed files with 36 additions and 36 deletions.
diff --git a/.gitignore b/.gitignore
@@ -16,6 +16,6 @@ biobb_wf_virtual-screening/notebooks/*/*.web.ipynb
 biobb_wf_virtual-screening/notebooks/*/*.docs.ipynb
 biobb_wf_virtual-screening/notebooks/*/*.png
 biobb_wf_virtual-screening/docs/notebooks/
-biobb_wf_virtual-screening/html/cluster_bs/wf_vs_clusterBindingSite.web.ipynb
-biobb_wf_virtual-screening/html/ebi_api/wf_vs_ebi_api.web.ipynb
-biobb_wf_virtual-screening/html/fpocket/wf_vs_fpocket.web.ipynb
+biobb_wf_virtual-screening/html/cluster_bs/biobb_wf_virtual-screening_cluster_bs.web.ipynb
+biobb_wf_virtual-screening/html/ebi_api/biobb_wf_virtual-screening_ebi_api.web.ipynb
+biobb_wf_virtual-screening/html/fpocket/biobb_wf_virtual-screening_fpocket.web.ipynb
diff --git a/README.md b/README.md
diff --git a/biobb_wf_virtual-screening/docs/source/cluster_bs_tutorial.md b/biobb_wf_virtual-screening/docs/source/cluster_bs_tutorial.md
@@ -33,7 +33,7 @@ git clone https://github.com/bioexcel/biobb_wf_virtual-screening.git
 cd biobb_wf_virtual-screening
 conda env create -f conda_env/environment.yml
 conda activate biobb_wf_virtual-screening
-jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/wf_vs_clusterBindingSite.ipynb
+jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/biobb_wf_virtual-screening_cluster_bs.ipynb
 ```
 
 ***
@@ -102,7 +102,7 @@ if 'google.colab' in sys.modules:
   output.enable_custom_widget_manager()
   # Change working dir
   import os
-  os.chdir("biobb_wf_virtual-screening/biobb_wf_virtual-screening/notebooks/clusterBindingSite")
+  os.chdir("biobb_wf_virtual-screening/biobb_wf_virtual-screening/notebooks/cluster_bs")
   print(f"📂 New working directory: {os.getcwd()}")
 ```
 

diff --git a/biobb_wf_virtual-screening/docs/source/ebi_api_tutorial.md b/biobb_wf_virtual-screening/docs/source/ebi_api_tutorial.md
@@ -33,7 +33,7 @@ git clone https://github.com/bioexcel/biobb_wf_virtual-screening.git
 cd biobb_wf_virtual-screening
 conda env create -f conda_env/environment.yml
 conda activate biobb_wf_virtual-screening
-jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/wf_vs_ebi_api.ipynb
+jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/biobb_wf_virtual-screening_ebi_api.ipynb
 ```
 
 ***

diff --git a/biobb_wf_virtual-screening/docs/source/fpocket_tutorial.md b/biobb_wf_virtual-screening/docs/source/fpocket_tutorial.md
@@ -34,7 +34,7 @@ git clone https://github.com/bioexcel/biobb_wf_virtual-screening.git
 cd biobb_wf_virtual-screening
 conda env create -f conda_env/environment.yml
 conda activate biobb_wf_virtual-screening
-jupyter-notebook biobb_wf_virtual-screening/notebooks/fpocket/wf_vs_fpocket.ipynb
+jupyter-notebook biobb_wf_virtual-screening/notebooks/fpocket/biobb_wf_virtual-screening_fpocket.ipynb
 ```
 
 ***

diff --git a/biobb_wf_virtual-screening/docs/source/readme.md b/biobb_wf_virtual-screening/docs/source/readme.md
diff --git a/...ster_bs/wf_vs_clusterBindingSite.web.html → ..._wf_virtual-screening_cluster_bs.web.html b/...ster_bs/wf_vs_clusterBindingSite.web.html → ..._wf_virtual-screening_cluster_bs.web.html
@@ -3,7 +3,7 @@
 <html lang="en">
 <head><meta charset="utf-8"/>
 <meta content="width=device-width, initial-scale=1.0" name="viewport"/>
-<title>wf_vs_clusterBindingSite.web</title><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.1.10/require.min.js"></script>
+<title>biobb_wf_virtual-screening_cluster_bs.web</title><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.1.10/require.min.js"></script>
 <style type="text/css">
     pre { line-height: 125%; }
 td.linenos .normal { color: inherit; background-color: transparent; padding-left: 5px; padding-right: 5px; }
@@ -7537,7 +7537,7 @@ <h3 id="Conda-Installation">Conda Installation<a class="anchor-link" href="#Cond
 <span class="go">cd biobb_wf_virtual-screening</span>
 <span class="go">conda env create -f conda_env/environment.yml</span>
 <span class="go">conda activate biobb_wf_virtual-screening</span>
-<span class="go">jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/wf_vs_clusterBindingSite.ipynb</span>
+<span class="go">jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/biobb_wf_virtual-screening_cluster_bs.ipynb</span>
 </pre></div>
 <hr/>
 <h2 id="Pipeline-steps">Pipeline steps<a class="anchor-link" href="#Pipeline-steps">¶</a></h2><ol>
@@ -7628,7 +7628,7 @@ <h2 id="Initializing-colab">Initializing colab<a class="anchor-link" href="#Init
   <span class="n">output</span><span class="o">.</span><span class="n">enable_custom_widget_manager</span><span class="p">()</span>
   <span class="c1"># Change working dir</span>
   <span class="kn">import</span> <span class="nn">os</span>
-  <span class="n">os</span><span class="o">.</span><span class="n">chdir</span><span class="p">(</span><span class="s2">"biobb_wf_virtual-screening/biobb_wf_virtual-screening/notebooks/clusterBindingSite"</span><span class="p">)</span>
+  <span class="n">os</span><span class="o">.</span><span class="n">chdir</span><span class="p">(</span><span class="s2">"biobb_wf_virtual-screening/biobb_wf_virtual-screening/notebooks/cluster_bs"</span><span class="p">)</span>
   <span class="nb">print</span><span class="p">(</span><span class="sa">f</span><span class="s2">"📂 New working directory: </span><span class="si">{</span><span class="n">os</span><span class="o">.</span><span class="n">getcwd</span><span class="p">()</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
 </pre></div>
 </div>

diff --git a/...ening/html/ebi_api/wf_vs_ebi_api.web.html → ...obb_wf_virtual-screening_ebi_api.web.html b/...ening/html/ebi_api/wf_vs_ebi_api.web.html → ...obb_wf_virtual-screening_ebi_api.web.html
@@ -3,7 +3,7 @@
 <html lang="en">
 <head><meta charset="utf-8"/>
 <meta content="width=device-width, initial-scale=1.0" name="viewport"/>
-<title>wf_vs_ebi_api.web</title><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.1.10/require.min.js"></script>
+<title>biobb_wf_virtual-screening_ebi_api.web</title><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.1.10/require.min.js"></script>
 <style type="text/css">
     pre { line-height: 125%; }
 td.linenos .normal { color: inherit; background-color: transparent; padding-left: 5px; padding-right: 5px; }
@@ -7537,7 +7537,7 @@ <h3 id="Conda-Installation">Conda Installation<a class="anchor-link" href="#Cond
 <span class="go">cd biobb_wf_virtual-screening</span>
 <span class="go">conda env create -f conda_env/environment.yml</span>
 <span class="go">conda activate biobb_wf_virtual-screening</span>
-<span class="go">jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/wf_vs_ebi_api.ipynb</span>
+<span class="go">jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/biobb_wf_virtual-screening_ebi_api.ipynb</span>
 </pre></div>
 <hr/>
 <h2 id="Pipeline-steps">Pipeline steps<a class="anchor-link" href="#Pipeline-steps">¶</a></h2><ol>

diff --git a/...ening/html/fpocket/wf_vs_fpocket.web.html → ...obb_wf_virtual-screening_fpocket.web.html b/...ening/html/fpocket/wf_vs_fpocket.web.html → ...obb_wf_virtual-screening_fpocket.web.html
@@ -3,7 +3,7 @@
 <html lang="en">
 <head><meta charset="utf-8"/>
 <meta content="width=device-width, initial-scale=1.0" name="viewport"/>
-<title>wf_vs_fpocket.web</title><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.1.10/require.min.js"></script>
+<title>biobb_wf_virtual-screening_fpocket.web</title><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.1.10/require.min.js"></script>
 <style type="text/css">
     pre { line-height: 125%; }
 td.linenos .normal { color: inherit; background-color: transparent; padding-left: 5px; padding-right: 5px; }
@@ -7537,7 +7537,7 @@ <h3 id="Conda-Installation">Conda Installation<a class="anchor-link" href="#Cond
 <span class="go">cd biobb_wf_virtual-screening</span>
 <span class="go">conda env create -f conda_env/environment.yml</span>
 <span class="go">conda activate biobb_wf_virtual-screening</span>
-<span class="go">jupyter-notebook biobb_wf_virtual-screening/notebooks/fpocket/wf_vs_fpocket.ipynb</span>
+<span class="go">jupyter-notebook biobb_wf_virtual-screening/notebooks/fpocket/biobb_wf_virtual-screening_fpocket.ipynb</span>
 </pre></div>
 <hr/>
 <h2 id="Pipeline-steps">Pipeline steps<a class="anchor-link" href="#Pipeline-steps">¶</a></h2><ol>

diff --git a/...indingSite/wf_vs_clusterBindingSite.ipynb → ...obb_wf_virtual-screening_cluster_bs.ipynb b/...indingSite/wf_vs_clusterBindingSite.ipynb → ...obb_wf_virtual-screening_cluster_bs.ipynb
@@ -39,7 +39,7 @@
     "cd biobb_wf_virtual-screening\n",
     "conda env create -f conda_env/environment.yml\n",
     "conda activate biobb_wf_virtual-screening\n",
-    "jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/wf_vs_clusterBindingSite.ipynb\n",
+    "jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/biobb_wf_virtual-screening_cluster_bs.ipynb\n",
     "```\n",
     "\n",
     "***\n",
@@ -123,7 +123,7 @@
     "  output.enable_custom_widget_manager()\n",
     "  # Change working dir\n",
     "  import os\n",
-    "  os.chdir(\"biobb_wf_virtual-screening/biobb_wf_virtual-screening/notebooks/clusterBindingSite\")\n",
+    "  os.chdir(\"biobb_wf_virtual-screening/biobb_wf_virtual-screening/notebooks/cluster_bs\")\n",
     "  print(f\"📂 New working directory: {os.getcwd()}\")"
    ]
   },

diff --git a/...ing/notebooks/ebi_api/wf_vs_ebi_api.ipynb → .../biobb_wf_virtual-screening_ebi_api.ipynb b/...ing/notebooks/ebi_api/wf_vs_ebi_api.ipynb → .../biobb_wf_virtual-screening_ebi_api.ipynb
@@ -39,7 +39,7 @@
     "cd biobb_wf_virtual-screening\n",
     "conda env create -f conda_env/environment.yml\n",
     "conda activate biobb_wf_virtual-screening\n",
-    "jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/wf_vs_ebi_api.ipynb\n",
+    "jupyter-notebook biobb_wf_virtual-screening/notebooks/ebi_api/biobb_wf_virtual-screening_ebi_api.ipynb\n",
     "```\n",
     "\n",
     "***\n",

diff --git a/...ing/notebooks/fpocket/wf_vs_fpocket.ipynb → .../biobb_wf_virtual-screening_fpocket.ipynb b/...ing/notebooks/fpocket/wf_vs_fpocket.ipynb → .../biobb_wf_virtual-screening_fpocket.ipynb
@@ -40,7 +40,7 @@
     "cd biobb_wf_virtual-screening\n",
     "conda env create -f conda_env/environment.yml\n",
     "conda activate biobb_wf_virtual-screening\n",
-    "jupyter-notebook biobb_wf_virtual-screening/notebooks/fpocket/wf_vs_fpocket.ipynb\n",
+    "jupyter-notebook biobb_wf_virtual-screening/notebooks/fpocket/biobb_wf_virtual-screening_fpocket.ipynb\n",
     "```\n",
     "\n",
     "***\n",