diff --git a/coverage/class_index.html b/coverage/class_index.html
index 1da8999..8eb0917 100644
--- a/coverage/class_index.html
+++ b/coverage/class_index.html
@@ -55,7 +55,7 @@ <h2>
         </h2>
         <p class="text">
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
 </header>
@@ -180,7 +180,7 @@ <h2>
     <div class="content">
         <p>
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
     <aside class="hidden">
diff --git a/coverage/coverage.xml b/coverage/coverage.xml
index 05833ac..a0c3004 100644
--- a/coverage/coverage.xml
+++ b/coverage/coverage.xml
@@ -1,5 +1,5 @@
 <?xml version="1.0" ?>
-<coverage version="7.6.4" timestamp="1730733130599" lines-valid="315" lines-covered="255" line-rate="0.8095" branches-covered="0" branches-valid="0" branch-rate="0" complexity="0">
+<coverage version="7.6.4" timestamp="1730733249937" lines-valid="315" lines-covered="255" line-rate="0.8095" branches-covered="0" branches-valid="0" branch-rate="0" complexity="0">
 	<!-- Generated by coverage.py: https://coverage.readthedocs.io/en/7.6.4 -->
 	<!-- Based on https://raw.githubusercontent.com/cobertura/web/master/htdocs/xml/coverage-04.dtd -->
 	<sources>
diff --git a/coverage/function_index.html b/coverage/function_index.html
index a64ba12..2ee29f0 100644
--- a/coverage/function_index.html
+++ b/coverage/function_index.html
@@ -55,7 +55,7 @@ <h2>
         </h2>
         <p class="text">
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
 </header>
@@ -324,7 +324,7 @@ <h2>
     <div class="content">
         <p>
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
     <aside class="hidden">
diff --git a/coverage/index.html b/coverage/index.html
index b0faa79..6c03f28 100644
--- a/coverage/index.html
+++ b/coverage/index.html
@@ -54,7 +54,7 @@ <h2>
         </h2>
         <p class="text">
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
 </header>
@@ -138,7 +138,7 @@ <h2>
     <div class="content">
         <p>
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
     <aside class="hidden">
diff --git a/coverage/z_1594175cfefe9933___init___py.html b/coverage/z_1594175cfefe9933___init___py.html
index 5e7b236..d0f1f79 100644
--- a/coverage/z_1594175cfefe9933___init___py.html
+++ b/coverage/z_1594175cfefe9933___init___py.html
@@ -65,7 +65,7 @@ <h2>
             <a id="nextFileLink" class="nav" href="z_c296ee536f0b791d___init___py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
         <aside class="hidden">
             <button type="button" class="button_next_chunk" data-shortcut="j"></button>
@@ -93,7 +93,7 @@ <h2>
             <a class="nav" href="z_c296ee536f0b791d___init___py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
 </footer>
diff --git a/coverage/z_b3ec5c7564c25379_test_godmd_prep_py.html b/coverage/z_b3ec5c7564c25379_test_godmd_prep_py.html
index ebb9d1d..f6ed77e 100644
--- a/coverage/z_b3ec5c7564c25379_test_godmd_prep_py.html
+++ b/coverage/z_b3ec5c7564c25379_test_godmd_prep_py.html
@@ -65,7 +65,7 @@ <h2>
             <a id="nextFileLink" class="nav" href="z_b3ec5c7564c25379_test_godmd_run_py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
         <aside class="hidden">
             <button type="button" class="button_next_chunk" data-shortcut="j"></button>
@@ -108,7 +108,7 @@ <h2>
             <a class="nav" href="z_b3ec5c7564c25379_test_godmd_run_py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
 </footer>
diff --git a/coverage/z_b3ec5c7564c25379_test_godmd_run_py.html b/coverage/z_b3ec5c7564c25379_test_godmd_run_py.html
index 6621cb5..398a351 100644
--- a/coverage/z_b3ec5c7564c25379_test_godmd_run_py.html
+++ b/coverage/z_b3ec5c7564c25379_test_godmd_run_py.html
@@ -65,7 +65,7 @@ <h2>
             <a id="nextFileLink" class="nav" href="index.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
         <aside class="hidden">
             <button type="button" class="button_next_chunk" data-shortcut="j"></button>
@@ -110,7 +110,7 @@ <h2>
             <a class="nav" href="index.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
 </footer>
diff --git a/coverage/z_c296ee536f0b791d___init___py.html b/coverage/z_c296ee536f0b791d___init___py.html
index 75de93a..61e7ae7 100644
--- a/coverage/z_c296ee536f0b791d___init___py.html
+++ b/coverage/z_c296ee536f0b791d___init___py.html
@@ -65,7 +65,7 @@ <h2>
             <a id="nextFileLink" class="nav" href="z_c296ee536f0b791d_common_py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
         <aside class="hidden">
             <button type="button" class="button_next_chunk" data-shortcut="j"></button>
@@ -93,7 +93,7 @@ <h2>
             <a class="nav" href="z_c296ee536f0b791d_common_py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
 </footer>
diff --git a/coverage/z_c296ee536f0b791d_common_py.html b/coverage/z_c296ee536f0b791d_common_py.html
index 625339d..9dce109 100644
--- a/coverage/z_c296ee536f0b791d_common_py.html
+++ b/coverage/z_c296ee536f0b791d_common_py.html
@@ -65,7 +65,7 @@ <h2>
             <a id="nextFileLink" class="nav" href="z_c296ee536f0b791d_godmd_prep_py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
         <aside class="hidden">
             <button type="button" class="button_next_chunk" data-shortcut="j"></button>
@@ -140,7 +140,7 @@ <h2>
             <a class="nav" href="z_c296ee536f0b791d_godmd_prep_py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
 </footer>
diff --git a/coverage/z_c296ee536f0b791d_godmd_prep_py.html b/coverage/z_c296ee536f0b791d_godmd_prep_py.html
index 795e674..43d2b0e 100644
--- a/coverage/z_c296ee536f0b791d_godmd_prep_py.html
+++ b/coverage/z_c296ee536f0b791d_godmd_prep_py.html
@@ -65,7 +65,7 @@ <h2>
             <a id="nextFileLink" class="nav" href="z_c296ee536f0b791d_godmd_run_py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
         <aside class="hidden">
             <button type="button" class="button_next_chunk" data-shortcut="j"></button>
@@ -455,7 +455,7 @@ <h2>
             <a class="nav" href="z_c296ee536f0b791d_godmd_run_py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
 </footer>
diff --git a/coverage/z_c296ee536f0b791d_godmd_run_py.html b/coverage/z_c296ee536f0b791d_godmd_run_py.html
index 0bb189b..f0409e8 100644
--- a/coverage/z_c296ee536f0b791d_godmd_run_py.html
+++ b/coverage/z_c296ee536f0b791d_godmd_run_py.html
@@ -65,7 +65,7 @@ <h2>
             <a id="nextFileLink" class="nav" href="z_b3ec5c7564c25379_test_godmd_prep_py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
         <aside class="hidden">
             <button type="button" class="button_next_chunk" data-shortcut="j"></button>
@@ -354,7 +354,7 @@ <h2>
             <a class="nav" href="z_b3ec5c7564c25379_test_godmd_prep_py.html">&#xbb; next</a>
             &nbsp; &nbsp; &nbsp;
             <a class="nav" href="https://coverage.readthedocs.io/en/7.6.4">coverage.py v7.6.4</a>,
-            created at 2024-11-04 15:12 +0000
+            created at 2024-11-04 15:14 +0000
         </p>
     </div>
 </footer>
diff --git a/flake8/index.html b/flake8/index.html
index 69a34ca..c7b6bee 100644
--- a/flake8/index.html
+++ b/flake8/index.html
@@ -9,7 +9,7 @@
       <div id="masthead" class="sev-4"></div>
       <div id="page">
           <h1>flake8 violations</h1>
-         <p id="versions">Generated on 2024-11-04 15:11
+         <p id="versions">Generated on 2024-11-04 15:13
             with Installed plugins: flake8-html: 0.4.3, mccabe: 0.7.0, pycodestyle: 2.12.1, pyflakes: 3.2.0
          </p>
          <ul id="index">
diff --git a/junit/junit.xml b/junit/junit.xml
index 18e9836..3851b42 100644
--- a/junit/junit.xml
+++ b/junit/junit.xml
@@ -1 +1 @@
-<?xml version="1.0" encoding="utf-8"?><testsuites><testsuite name="pytest" errors="0" failures="0" skipped="0" tests="2" time="15.391" timestamp="2024-11-04T15:11:53.087907+00:00" hostname="biobb-runners"><testcase classname="biobb_godmd.test.unitests.test_godmd.test_godmd_prep.TestGOdMDPrep" name="test_godmd_prep" time="0.038" /><testcase classname="biobb_godmd.test.unitests.test_godmd.test_godmd_run.TestGOdMDrun" name="test_godmd_run" time="14.993" /></testsuite></testsuites>
\ No newline at end of file
+<?xml version="1.0" encoding="utf-8"?><testsuites><testsuite name="pytest" errors="0" failures="0" skipped="0" tests="2" time="15.542" timestamp="2024-11-04T15:13:53.896989+00:00" hostname="biobb-runners"><testcase classname="biobb_godmd.test.unitests.test_godmd.test_godmd_prep.TestGOdMDPrep" name="test_godmd_prep" time="0.042" /><testcase classname="biobb_godmd.test.unitests.test_godmd.test_godmd_run.TestGOdMDrun" name="test_godmd_run" time="15.095" /></testsuite></testsuites>
\ No newline at end of file
diff --git a/junit/report.html b/junit/report.html
index 0503201..26a3dc8 100644
--- a/junit/report.html
+++ b/junit/report.html
@@ -7,7 +7,7 @@
   </head>
   <body>
     <h1 id="title">report.html</h1>
-    <p>Report generated on 04-Nov-2024 at 15:12:08 by <a href="https://pypi.python.org/pypi/pytest-html">pytest-html</a>
+    <p>Report generated on 04-Nov-2024 at 15:14:09 by <a href="https://pypi.python.org/pypi/pytest-html">pytest-html</a>
         v4.1.1</p>
     <div id="environment-header">
       <h2>Environment</h2>
@@ -108,7 +108,7 @@ <h2>Summary</h2>
     </table>
   </body>
   <footer>
-    <div id="data-container" data-jsonblob="{&#34;environment&#34;: {&#34;Python&#34;: &#34;3.10.15&#34;, &#34;Platform&#34;: &#34;Linux-5.4.0-200-generic-x86_64-with-glibc2.31&#34;, &#34;Packages&#34;: {&#34;pytest&#34;: &#34;8.3.3&#34;, &#34;pluggy&#34;: &#34;1.5.0&#34;}, &#34;Plugins&#34;: {&#34;metadata&#34;: &#34;3.1.1&#34;, &#34;cov&#34;: &#34;6.0.0&#34;, &#34;html&#34;: &#34;4.1.1&#34;}, &#34;CI&#34;: &#34;true&#34;}, &#34;tests&#34;: {&#34;biobb_godmd/test/unitests/test_godmd/test_godmd_prep.py::TestGOdMDPrep::test_godmd_prep&#34;: [{&#34;extras&#34;: [], &#34;result&#34;: &#34;Passed&#34;, &#34;testId&#34;: &#34;biobb_godmd/test/unitests/test_godmd/test_godmd_prep.py::TestGOdMDPrep::test_godmd_prep&#34;, &#34;duration&#34;: &#34;38 ms&#34;, &#34;resultsTableRow&#34;: [&#34;&lt;td class=\&#34;col-result\&#34;&gt;Passed&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-testId\&#34;&gt;biobb_godmd/test/unitests/test_godmd/test_godmd_prep.py::TestGOdMDPrep::test_godmd_prep&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-duration\&#34;&gt;38 ms&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-links\&#34;&gt;&lt;/td&gt;&#34;], &#34;log&#34;: &#34;----------------------------- Captured stdout call -----------------------------\n2024-11-04 15:11:53,397 [MainThread  ] [INFO ]  Module: biobb_godmd.godmd.godmd_prep Version: 4.2.0\n2024-11-04 15:11:53,398 [MainThread  ] [INFO ]  /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1 directory successfully created\n2024-11-04 15:11:53,398 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.pdb to /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1\n2024-11-04 15:11:53,399 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.pdb to /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1\n2024-11-04 15:11:53,404 [MainThread  ] [INFO ]  water -auto -outfile /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1/water_align.out -asequence /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1/fasta1.fa -bsequence /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1/fasta2.fa -gapopen 12.0 -gapextend 2 -datafile EPAM250 -aformat markx10\n\n2024-11-04 15:11:53,420 [MainThread  ] [INFO ]  Executing: water -auto -outfile /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a8...\n2024-11-04 15:11:53,421 [MainThread  ] [INFO ]  Exit code: 0\n2024-11-04 15:11:53,422 [MainThread  ] [INFO ]  Removed: [&amp;#x27;/tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1&amp;#x27;]\n2024-11-04 15:11:53,422 [MainThread  ] [INFO ]  \nChecking if empty file: /tmp/biobb/unitests_33/godmd_prep/godmd_orig.aln\nChecking if empty file: /tmp/biobb/unitests_33/godmd_prep/godmd_target.aln\n\n------------------------------ Captured log call -------------------------------\nINFO     /tmp/biobb/unitests_33/godmd_prep/godmd_prep_log.out:file_utils.py:409 Module: biobb_godmd.godmd.godmd_prep Version: 4.2.0\nINFO     /tmp/biobb/unitests_33/godmd_prep/godmd_prep_log.out:file_utils.py:82 /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1 directory successfully created\nINFO     /tmp/biobb/unitests_33/godmd_prep/godmd_prep_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.pdb to /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1\nINFO     /tmp/biobb/unitests_33/godmd_prep/godmd_prep_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.pdb to /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1\nINFO     /tmp/biobb/unitests_33/godmd_prep/godmd_prep_log.out:cmd_wrapper.py:63 water -auto -outfile /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1/water_align.out -asequence /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1/fasta1.fa -bsequence /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1/fasta2.fa -gapopen 12.0 -gapextend 2 -datafile EPAM250 -aformat markx10\n\nINFO     /tmp/biobb/unitests_33/godmd_prep/godmd_prep_log.out:cmd_wrapper.py:36 Executing: water -auto -outfile /tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a8...\nINFO     /tmp/biobb/unitests_33/godmd_prep/godmd_prep_log.out:cmd_wrapper.py:37 Exit code: 0\nINFO     /tmp/biobb/unitests_33/godmd_prep/godmd_prep_log.out:file_utils.py:409 Removed: [&amp;#x27;/tmp/biobb/unitests_33/godmd_prep/sandbox_637ddfc5-a978-4a88-874d-1bf74216b8c1&amp;#x27;]\nINFO     /tmp/biobb/unitests_33/godmd_prep/godmd_prep_log.out:file_utils.py:409\n\n--------------------------- Captured stdout teardown ---------------------------\n\nRemoving: /tmp/biobb/unitests_33\n&#34;}], &#34;biobb_godmd/test/unitests/test_godmd/test_godmd_run.py::TestGOdMDrun::test_godmd_run&#34;: [{&#34;extras&#34;: [], &#34;result&#34;: &#34;Passed&#34;, &#34;testId&#34;: &#34;biobb_godmd/test/unitests/test_godmd/test_godmd_run.py::TestGOdMDrun::test_godmd_run&#34;, &#34;duration&#34;: &#34;00:00:15&#34;, &#34;resultsTableRow&#34;: [&#34;&lt;td class=\&#34;col-result\&#34;&gt;Passed&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-testId\&#34;&gt;biobb_godmd/test/unitests/test_godmd/test_godmd_run.py::TestGOdMDrun::test_godmd_run&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-duration\&#34;&gt;00:00:15&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-links\&#34;&gt;&lt;/td&gt;&#34;], &#34;log&#34;: &#34;----------------------------- Captured stdout call -----------------------------\n2024-11-04 15:11:53,449 [MainThread  ] [INFO ]  Module: biobb_godmd.godmd.godmd_run Version: 4.2.0\n2024-11-04 15:11:53,449 [MainThread  ] [INFO ]  /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d directory successfully created\n2024-11-04 15:11:53,449 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.pdb to /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d\n2024-11-04 15:11:53,450 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.pdb to /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d\n2024-11-04 15:11:53,450 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.aln to /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d\n2024-11-04 15:11:53,450 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.aln to /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d\n2024-11-04 15:11:53,450 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/params.in to /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d\n2024-11-04 15:11:53,451 [MainThread  ] [INFO ]  cd /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d ; discrete -i godmd.in -pdbin 1ake_A.pdb -pdbtarg 4ake_A.pdb -p1 1ake_A.aln -p2 4ake_A.aln -o godmd.log -ener godmd_ene.out -trj godmd_trj.mdcrd\n\n2024-11-04 15:12:08,429 [MainThread  ] [INFO ]  Executing: cd /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d...\n2024-11-04 15:12:08,429 [MainThread  ] [INFO ]  Exit code: 0\n2024-11-04 15:12:08,431 [MainThread  ] [INFO ]  Removed: [&amp;#x27;/tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d&amp;#x27;]\n2024-11-04 15:12:08,432 [MainThread  ] [INFO ]  \nChecking if empty file: /tmp/biobb/unitests_33/godmd_run/godmd.log\nChecking if empty file: /tmp/biobb/unitests_33/godmd_run/godmd_ene.out\nChecking if empty file: /tmp/biobb/unitests_33/godmd_run/godmd_trj.mdcrd\nChecking if empty file: /tmp/biobb/unitests_33/godmd_run/godmd_pdb.pdb\n\n------------------------------ Captured log call -------------------------------\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:file_utils.py:409 Module: biobb_godmd.godmd.godmd_run Version: 4.2.0\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:file_utils.py:82 /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d directory successfully created\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.pdb to /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.pdb to /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.aln to /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.aln to /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/params.in to /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:cmd_wrapper.py:63 cd /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d ; discrete -i godmd.in -pdbin 1ake_A.pdb -pdbtarg 4ake_A.pdb -p1 1ake_A.aln -p2 4ake_A.aln -o godmd.log -ener godmd_ene.out -trj godmd_trj.mdcrd\n\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:cmd_wrapper.py:36 Executing: cd /tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d...\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:cmd_wrapper.py:37 Exit code: 0\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:file_utils.py:409 Removed: [&amp;#x27;/tmp/biobb/unitests_33/godmd_run/sandbox_f7e9d453-24ca-4b9d-9855-c2df9681234d&amp;#x27;]\nINFO     /tmp/biobb/unitests_33/godmd_run/godmd_run_log.out:file_utils.py:409\n\n&#34;}]}, &#34;renderCollapsed&#34;: [&#34;passed&#34;], &#34;initialSort&#34;: &#34;result&#34;, &#34;title&#34;: &#34;report.html&#34;}"></div>
+    <div id="data-container" data-jsonblob="{&#34;environment&#34;: {&#34;Python&#34;: &#34;3.9.20&#34;, &#34;Platform&#34;: &#34;Linux-5.4.0-200-generic-x86_64-with-glibc2.31&#34;, &#34;Packages&#34;: {&#34;pytest&#34;: &#34;8.3.3&#34;, &#34;pluggy&#34;: &#34;1.5.0&#34;}, &#34;Plugins&#34;: {&#34;metadata&#34;: &#34;3.1.1&#34;, &#34;cov&#34;: &#34;6.0.0&#34;, &#34;html&#34;: &#34;4.1.1&#34;}, &#34;CI&#34;: &#34;true&#34;}, &#34;tests&#34;: {&#34;biobb_godmd/test/unitests/test_godmd/test_godmd_prep.py::TestGOdMDPrep::test_godmd_prep&#34;: [{&#34;extras&#34;: [], &#34;result&#34;: &#34;Passed&#34;, &#34;testId&#34;: &#34;biobb_godmd/test/unitests/test_godmd/test_godmd_prep.py::TestGOdMDPrep::test_godmd_prep&#34;, &#34;duration&#34;: &#34;42 ms&#34;, &#34;resultsTableRow&#34;: [&#34;&lt;td class=\&#34;col-result\&#34;&gt;Passed&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-testId\&#34;&gt;biobb_godmd/test/unitests/test_godmd/test_godmd_prep.py::TestGOdMDPrep::test_godmd_prep&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-duration\&#34;&gt;42 ms&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-links\&#34;&gt;&lt;/td&gt;&#34;], &#34;log&#34;: &#34;----------------------------- Captured stdout call -----------------------------\n2024-11-04 15:13:54,233 [MainThread  ] [INFO ]  Module: biobb_godmd.godmd.godmd_prep Version: 4.2.0\n2024-11-04 15:13:54,234 [MainThread  ] [INFO ]  /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe directory successfully created\n2024-11-04 15:13:54,234 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.pdb to /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe\n2024-11-04 15:13:54,235 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.pdb to /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe\n2024-11-04 15:13:54,239 [MainThread  ] [INFO ]  water -auto -outfile /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe/water_align.out -asequence /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe/fasta1.fa -bsequence /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe/fasta2.fa -gapopen 12.0 -gapextend 2 -datafile EPAM250 -aformat markx10\n\n2024-11-04 15:13:54,258 [MainThread  ] [INFO ]  Executing: water -auto -outfile /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd...\n2024-11-04 15:13:54,259 [MainThread  ] [INFO ]  Exit code: 0\n2024-11-04 15:13:54,260 [MainThread  ] [INFO ]  Removed: [&amp;#x27;/tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe&amp;#x27;]\n2024-11-04 15:13:54,261 [MainThread  ] [INFO ]  \nChecking if empty file: /tmp/biobb/unitests_34/godmd_prep/godmd_orig.aln\nChecking if empty file: /tmp/biobb/unitests_34/godmd_prep/godmd_target.aln\n\n------------------------------ Captured log call -------------------------------\nINFO     /tmp/biobb/unitests_34/godmd_prep/godmd_prep_log.out:file_utils.py:409 Module: biobb_godmd.godmd.godmd_prep Version: 4.2.0\nINFO     /tmp/biobb/unitests_34/godmd_prep/godmd_prep_log.out:file_utils.py:82 /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe directory successfully created\nINFO     /tmp/biobb/unitests_34/godmd_prep/godmd_prep_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.pdb to /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe\nINFO     /tmp/biobb/unitests_34/godmd_prep/godmd_prep_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.pdb to /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe\nINFO     /tmp/biobb/unitests_34/godmd_prep/godmd_prep_log.out:cmd_wrapper.py:63 water -auto -outfile /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe/water_align.out -asequence /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe/fasta1.fa -bsequence /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe/fasta2.fa -gapopen 12.0 -gapextend 2 -datafile EPAM250 -aformat markx10\n\nINFO     /tmp/biobb/unitests_34/godmd_prep/godmd_prep_log.out:cmd_wrapper.py:36 Executing: water -auto -outfile /tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd...\nINFO     /tmp/biobb/unitests_34/godmd_prep/godmd_prep_log.out:cmd_wrapper.py:37 Exit code: 0\nINFO     /tmp/biobb/unitests_34/godmd_prep/godmd_prep_log.out:file_utils.py:409 Removed: [&amp;#x27;/tmp/biobb/unitests_34/godmd_prep/sandbox_50eecd04-e480-4cd9-9891-7bf4f45d3cbe&amp;#x27;]\nINFO     /tmp/biobb/unitests_34/godmd_prep/godmd_prep_log.out:file_utils.py:409\n\n--------------------------- Captured stdout teardown ---------------------------\n\nRemoving: /tmp/biobb/unitests_34\n&#34;}], &#34;biobb_godmd/test/unitests/test_godmd/test_godmd_run.py::TestGOdMDrun::test_godmd_run&#34;: [{&#34;extras&#34;: [], &#34;result&#34;: &#34;Passed&#34;, &#34;testId&#34;: &#34;biobb_godmd/test/unitests/test_godmd/test_godmd_run.py::TestGOdMDrun::test_godmd_run&#34;, &#34;duration&#34;: &#34;00:00:15&#34;, &#34;resultsTableRow&#34;: [&#34;&lt;td class=\&#34;col-result\&#34;&gt;Passed&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-testId\&#34;&gt;biobb_godmd/test/unitests/test_godmd/test_godmd_run.py::TestGOdMDrun::test_godmd_run&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-duration\&#34;&gt;00:00:15&lt;/td&gt;&#34;, &#34;&lt;td class=\&#34;col-links\&#34;&gt;&lt;/td&gt;&#34;], &#34;log&#34;: &#34;----------------------------- Captured stdout call -----------------------------\n2024-11-04 15:13:54,300 [MainThread  ] [INFO ]  Module: biobb_godmd.godmd.godmd_run Version: 4.2.0\n2024-11-04 15:13:54,300 [MainThread  ] [INFO ]  /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e directory successfully created\n2024-11-04 15:13:54,301 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.pdb to /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e\n2024-11-04 15:13:54,301 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.pdb to /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e\n2024-11-04 15:13:54,301 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.aln to /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e\n2024-11-04 15:13:54,302 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.aln to /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e\n2024-11-04 15:13:54,302 [MainThread  ] [INFO ]  Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/params.in to /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e\n2024-11-04 15:13:54,302 [MainThread  ] [INFO ]  cd /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e ; discrete -i godmd.in -pdbin 1ake_A.pdb -pdbtarg 4ake_A.pdb -p1 1ake_A.aln -p2 4ake_A.aln -o godmd.log -ener godmd_ene.out -trj godmd_trj.mdcrd\n\n2024-11-04 15:14:09,382 [MainThread  ] [INFO ]  Executing: cd /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e...\n2024-11-04 15:14:09,382 [MainThread  ] [INFO ]  Exit code: 0\n2024-11-04 15:14:09,384 [MainThread  ] [INFO ]  Removed: [&amp;#x27;/tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e&amp;#x27;]\n2024-11-04 15:14:09,385 [MainThread  ] [INFO ]  \nChecking if empty file: /tmp/biobb/unitests_34/godmd_run/godmd.log\nChecking if empty file: /tmp/biobb/unitests_34/godmd_run/godmd_ene.out\nChecking if empty file: /tmp/biobb/unitests_34/godmd_run/godmd_trj.mdcrd\nChecking if empty file: /tmp/biobb/unitests_34/godmd_run/godmd_pdb.pdb\n\n------------------------------ Captured log call -------------------------------\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:file_utils.py:409 Module: biobb_godmd.godmd.godmd_run Version: 4.2.0\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:file_utils.py:82 /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e directory successfully created\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.pdb to /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.pdb to /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/1ake_A.aln to /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/4ake_A.aln to /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:file_utils.py:409 Copy: /home/user/actions-runner/_work/biobb_godmd/biobb_godmd/biobb_godmd/test/data/godmd/params.in to /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:cmd_wrapper.py:63 cd /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e ; discrete -i godmd.in -pdbin 1ake_A.pdb -pdbtarg 4ake_A.pdb -p1 1ake_A.aln -p2 4ake_A.aln -o godmd.log -ener godmd_ene.out -trj godmd_trj.mdcrd\n\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:cmd_wrapper.py:36 Executing: cd /tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e...\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:cmd_wrapper.py:37 Exit code: 0\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:file_utils.py:409 Removed: [&amp;#x27;/tmp/biobb/unitests_34/godmd_run/sandbox_06a7587e-ea01-4698-95c7-dff58b71094e&amp;#x27;]\nINFO     /tmp/biobb/unitests_34/godmd_run/godmd_run_log.out:file_utils.py:409\n\n&#34;}]}, &#34;renderCollapsed&#34;: [&#34;passed&#34;], &#34;initialSort&#34;: &#34;result&#34;, &#34;title&#34;: &#34;report.html&#34;}"></div>
     <script>
       (function(){function r(e,n,t){function o(i,f){if(!n[i]){if(!e[i]){var c="function"==typeof require&&require;if(!f&&c)return c(i,!0);if(u)return u(i,!0);var a=new Error("Cannot find module '"+i+"'");throw a.code="MODULE_NOT_FOUND",a}var p=n[i]={exports:{}};e[i][0].call(p.exports,function(r){var n=e[i][1][r];return o(n||r)},p,p.exports,r,e,n,t)}return n[i].exports}for(var u="function"==typeof require&&require,i=0;i<t.length;i++)o(t[i]);return o}return r})()({1:[function(require,module,exports){
 const { getCollapsedCategory, setCollapsedIds } = require('./storage.js')