Pathologic was missing because of a .git folder inside.

[yaffs-website] / web / modules / contrib / ctools / ctools.info.yml

name: Chaos tools
type: module
description: 'Provides a number of utility and helper APIs for Drupal developers and site builders.'
package: Chaos tool suite
# core: 8.x

# Information added by Drupal.org packaging script on 2017-04-28
version: '8.x-3.0'
core: '8.x'
project: 'ctools'
datestamp: 1493401747