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Excel 2 Dataverse

This script parse an Excel file and convert all data for Dataverse edit/update.

Installation

Note: This script need a webserver to run, so you can create a local domain to use every time you need.

Requirements

PHP version 7.2 with the following modules:

  • php7.2-curl
  • php7.2-dev
  • php7.2-json
  • php7.2-xml
  • php7.2-zip
$ apt-get install php7.2 php7.2-common php7.2-curl php7.2-dev php7.2-json php7.2-xml php7.2-zip
Clone or download this repository:
$ git clone https://github.com/bioversity/Excel-2-Dataverse.git
Create a local domain

If you want to leave the localhost address free, you can set a new local domain by appending this line in the /etc/hosts:

127.0.1.1               excel2dataverse.local
Setup the webserver

Following sample configurations:

Apache

NameVirtualHost excel2dataverse.local:80

<VirtualHost excel2dataverse.local:80>
        ServerName excel2dataverse.local
        ServerAdmin webmaster@localhost

        #LogLevel info ssl:warn

        ErrorLog ${APACHE_LOG_DIR}/error.excel2dataverse.log
        CustomLog ${APACHE_LOG_DIR}/access.excel2dataverse.log combined

        #Include conf-available/serve-cgi-bin.conf

        DocumentRoot /var/www/bioversity/excel2dataverse
        <Directory /var/www/bioversity/excel2dataverse>
            Options Indexes FollowSymLinks MultiViews
            AllowOverride All
            Order allow,deny
            allow from all
        </Directory>
</VirtualHost>
Nginx
server {
    listen 80;
    server_name excel2dataverse.local;
    root /var/www/bioversity/excel2dataverse;
}

Run

When launched the script check previously exported files in the directory export, if not present it generates.

The script accept GET parameters, so you can play with the address bar adding the following parameters:

  • row: Row filter
    Use this parameter to filter rows. Values can be a single row number (eg. 2), a list of rows (eg: 2,3,4,10) or a range (eg. 2-10).
    Note: The first row is used for column titles so is not available.
    Check the output statistics in the rows > filter section.
  • debug: Debug mode
    In debug mode no files will be generated and also append "old_values" into the output tree
  • only_fields: Only fields tree
    With this parameter the script generates only the tree with data present in dataset > results > data > latestVersion > metadataBlocks > citation > fields

Example commands:

http://excel2dataverse.local/
This address generates the output.json and output.txt of the entire excel file.

http://dataverse.local/?row=2
This address display and save the output only for row 2.

http://excel2dataverse.local/?debug&only_fields&row=2-10
This address display the output of rows from 2 to 10, with only the fields section and without saving the output locally.