2024.1

README.md

@@ -3,7 +3,7 @@
 [![](https://img.shields.io/conda/vn/bioconda/biobb_dna?label=Conda)](https://anaconda.org/bioconda/biobb_dna)
 [![](https://img.shields.io/conda/dn/bioconda/biobb_dna?label=Conda%20Downloads)](https://anaconda.org/bioconda/biobb_dna)
 [![](https://img.shields.io/badge/Docker-Quay.io-blue)](https://quay.io/repository/biocontainers/biobb_dna?tab=tags)
-[![](https://img.shields.io/badge/Singularity-GalaxyProject-blue)](https://depot.galaxyproject.org/singularity/biobb_dna:4.2.2--pyhdfd78af_0)
+[![](https://img.shields.io/badge/Singularity-GalaxyProject-blue)](https://depot.galaxyproject.org/singularity/biobb_dna:4.2.3--pyhdfd78af_0)
 
 [![](https://img.shields.io/badge/OS-Unix%20%7C%20MacOS-blue)](https://github.com/bioexcel/biobb_dna)
 [![](https://img.shields.io/pypi/pyversions/biobb-dna.svg?label=Python%20Versions)](https://pypi.org/project/biobb-dna/)
@@ -41,7 +41,7 @@ The latest documentation of this package can be found in our readthedocs site:
 [latest API documentation](http://biobb-dna.readthedocs.io/en/latest/).
 
 ### Version
-v4.2.2 2024.1
+v4.2.3 2024.1
 
 ### Installation
 Using PIP:
@@ -51,7 +51,7 @@ Using PIP:
 * Installation:
 
 
-        pip install "biobb_dna>=4.2.2"
+        pip install "biobb_dna>=4.2.3"
 
 
 * Usage: [Python API documentation](https://biobb-dna.readthedocs.io/en/latest/modules.html)
@@ -61,7 +61,7 @@ Using ANACONDA:
 * Installation:
 
 
-        conda install -c bioconda "biobb_dna>=4.2.2"
+        conda install -c bioconda "biobb_dna>=4.2.3"
 
 
 * Usage: With conda installation BioBBs can be used with the [Python API documentation](https://biobb-dna.readthedocs.io/en/latest/modules.html) and the [Command Line documentation](https://biobb-dna.readthedocs.io/en/latest/command_line.html)
@@ -71,13 +71,13 @@ Using DOCKER:
 * Installation:
 
 
-        docker pull quay.io/biocontainers/biobb_dna:4.2.2--pyhdfd78af_0
+        docker pull quay.io/biocontainers/biobb_dna:4.2.3--pyhdfd78af_0
 
 
 * Usage:
 
 
-        docker run quay.io/biocontainers/biobb_dna:4.2.2--pyhdfd78af_0 <command>
+        docker run quay.io/biocontainers/biobb_dna:4.2.3--pyhdfd78af_0 <command>
 
 Using SINGULARITY:
 
@@ -86,7 +86,7 @@ Using SINGULARITY:
 * Installation:
 
 
-        singularity pull --name biobb_dna.sif https://depot.galaxyproject.org/singularity/biobb_dna:4.2.2--pyhdfd78af_0
+        singularity pull --name biobb_dna.sif https://depot.galaxyproject.org/singularity/biobb_dna:4.2.3--pyhdfd78af_0
 
 
 * Usage:

biobb_dna/__init__.py

@@ -1,4 +1,4 @@
 name = "biobb_dna"
 __all__ = ["dna", "curvesplus", "backbone", "stiffness",
            "interbp_correlations", "intrabp_correlations"]
-__version__ = "4.2.2"
+__version__ = "4.2.3"

biobb_dna/curvesplus/canal_unzip.py

@@ -27,6 +27,7 @@ class CanalUnzip(BiobbObject):
             * **correlation** (*str*) - (None) Correlation indexes separated by underscore (ie '98_165'), only for 'corr' type.
             * **remove_tmp** (*bool*) - (True) [WF property] Remove temporal files.
             * **restart** (*bool*) - (False) [WF property] Do not execute if output files exist.
+            * **sandbox_path** (*str*) - ("./") [WF property] Parent path to the sandbox directory.
     Examples:
         This is a use example of how to use the building block from Python::
 

biobb_dna/dna/dna_timeseries_unzip.py

@@ -19,16 +19,17 @@ class DnaTimeseriesUnzip(BiobbObject):
 
     Args:
         input_zip_file (str): Zip file with dna_timeseries output files. File type: input. `Sample file <https://raw.githubusercontent.com/bioexcel/biobb_dna/master/biobb_dna/test/data/dna/timeseries_output.zip>`_. Accepted formats: zip (edam:format_3987).
-        output_path_csv (str): dna_timeseries output csv file contained within input_zip_file. File type: output. `Sample file <https://raw.githubusercontent.com/bioexcel/biobb_dna/master/biobb_dna/test/reference/dna/dna_timeseries_unzip_output.csv>`_. Accepted formats: csv (edam:format_3752).
-        output_path_jpg (str): dna_timeseries output jpg file contained within input_zip_file. File type: output. `Sample file <https://raw.githubusercontent.com/bioexcel/biobb_dna/master/biobb_dna/test/reference/dna/dna_timeseries_unzip_output.jpg>`_. Accepted formats: jpg (edam:format_3579).
-        output_list_path (str) (Optional): Text file with a list of all dna_timeseries output files contained within input_zip_file. File type: output. `Sample file <https://raw.githubusercontent.com/bioexcel/biobb_dna/master/biobb_dna/test/reference/dna/dna_timeseries_unzip_output.txt>`_. Accepted formats: txt (edam:format_2330).
+        output_path_csv (str): dna_timeseries output csv file contained within input_zip_file. File type: output. `Sample file <https://raw.githubusercontent.com/bioexcel/biobb_dna/master/biobb_dna/test/reference/dna/dna_timeseries_unzip.csv>`_. Accepted formats: csv (edam:format_3752).
+        output_path_jpg (str): dna_timeseries output jpg file contained within input_zip_file. File type: output. `Sample file <https://raw.githubusercontent.com/bioexcel/biobb_dna/master/biobb_dna/test/reference/dna/dna_timeseries_unzip.jpg>`_. Accepted formats: jpg (edam:format_3579).
+        output_list_path (str) (Optional): Text file with a list of all dna_timeseries output files contained within input_zip_file. File type: output. `Sample file <https://raw.githubusercontent.com/bioexcel/biobb_dna/master/biobb_dna/test/reference/dna/dna_timeseries_unzip.txt>`_. Accepted formats: txt (edam:format_2330).
         properties (dic):
             * **type** (*str*) - (None) Type of analysis, series or histogram. Values: series, hist.
             * **parameter** (*str*) - (None) Type of parameter. Values: majd, majw, mind, minw, inclin, tip, xdisp, ydisp, shear, stretch, stagger, buckle, propel, opening, rise, roll, twist, shift, slide, tilt, alphaC, alphaW, betaC, betaW, gammaC, gammaW, deltaC, deltaW, epsilC, epsilW, zetaC, zetaW, chiC, chiW, phaseC, phaseW.
             * **sequence** (*str*) - (None) Nucleic acid sequence used for generating dna_timeseries output file.
             * **index** (*int*) - (0) Base pair index in the parameter 'sequence', starting from 0.
             * **remove_tmp** (*bool*) - (True) [WF property] Remove temporal files.
             * **restart** (*bool*) - (False) [WF property] Do not execute if output files exist.
+            * **sandbox_path** (*str*) - ("./") [WF property] Parent path to the sandbox directory.
     Examples:
         This is a use example of how to use the building block from Python::
 

biobb_dna/docs/source/change_log.md

@@ -1,5 +1,14 @@
 # Biobb Analysis changelog
 
+## What's new in version [4.2.3](https://github.com/bioexcel/biobb_dna/releases/tag/v4.2.3)?
+In version 4.2.3 some bugs in Canion and Curves have been fixed. Added two new tools: CanalUnzip and DnaTimeseriesUnzip.
+
+### New features
+
+* Bug fixes in Canion and Curves (curvesplus)
+* New CanalUnzip tool (curvesplus)
+* New DnaTimeseriesUnzip tool (dna)
+
 ## What's new in version [4.2.2](https://github.com/bioexcel/biobb_dna/releases/tag/v4.2.2)?
 In version 4.2.2 a bug in HelParBimodality has been fixed.