Metadata-Version: 2.1
Name: FishScrapping
Version: 1.1
Summary: UNKNOWN
Home-page: https://github.com/Ulises-Rosas/OBISdat
Author: Ulises Rosas
Author-email: ulisesfrosasp@gmail.com
License: UNKNOWN
Description: [![DOI](https://zenodo.org/badge/148187014.svg)](https://zenodo.org/badge/latestdoi/148187014)
        
        # FishScrapping
        
        Features:
        
        - [x] get up-to-date information from FishBase database
        - [x] Terminal-based scripts
        
        Software requierements:
        * Python 3
        
        #### Installation
        
        Using `pip`
        
        ```Shell
        pip install FishScrapping
        ```
        
        ### Length-Weight relationships
        
        Let's suppose we have the following a list of species stored at [species.txt](https://github.com/Ulises-Rosas/FishScrapping/blob/master/species.txt):
        
        ```Shell
        cat species.txt
        ```
        ```
        Odontesthes regia
        Engraulis ringens
        Menticirrhus undulatus
        Sciaena deliciosa
        ```
        We can obtain their LWRs by using:
        
        ```Shell
        fishbase.py species.txt -lw
        ```
        
        While output file name is based on input and on above example this file is named `species_fishbase_lw.tsv`, option `-out` can also modify default names. 
        
        ```Shell
        cat species_fishbase_lw.tsv
        ```
        ```
        species	a	b	n	Country	RangeLength
        Odontesthes regia	NA	NA	NA	NA	NA
        Engraulis ringens	0.02150	2.604	NA	Peru	NA
        Engraulis ringens	0.00674	3.000	NA	Peru	NA
        Engraulis ringens	0.00460	3.121	NA	Chile	NA
        Engraulis ringens	0.00421	3.144	NA	Chile	NA
        Engraulis ringens	0.00375	3.221	NA	Chile	NA
        Menticirrhus undulatus	0.01027	3.000	1	NA	61.0, 61.0
        Sciaena deliciosa	NA	NA	NA	NA	NA
        ```
        ### Synonyms
        We can also extract species synonyms according to this database with the option `-syn`:
        
        ```Shell
        fishbase.py species.txt -syn
        ```
        
        Again, by default `fishbase.py` uses its input to name its output, however this can be modified with `-out` option.
        
        ```Shell
        cat species_fishbase_syn.tsv
        ```
        ```
        species	synonyms
        Odontesthes regia	Atherina regia, Austromenidia regia, Atherina laticlavia, Austromenidia laticlava, Chirostoma affine, Basilichthys regillus, Cauque regillus, Odontesthes regillus, Basilichthys jordani, Basilichthys octavius, Odontesthes regia
        Engraulis ringens	Engraulis pulchellus, Engraulis tapirulus, Anchoviella tapirulus, Stolephorus tapirulus, Engraulis ringens
        Menticirrhus undulatus	Umbrina undulata, Menticirrhus undulatus
        Sciaena deliciosa	Corvina deliciosa, Sciaena deliciosa
        ```
        
        
        
Platform: UNKNOWN
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: MIT License
Description-Content-Type: text/markdown
