You have an API to allow you to do this.
The admin API swagger for Integration Server can be downloaded from you server directly, if running on your local machine, click on the following link.
http://localhost:5555/admin/swagger/integrationServer/
for instance to reload a package you could do this from command line with curl e.g.
curl -X "POST" "http://localhost:5555/admin/package/JcPublicTools?action=reload" \
-u 'Administrator:manage'
for info the above API was added with 10.5, so you are in luck for your servers that are at 10.5 or better
#webMethods