With the woocommerce 3.0.1 a few of the template files went out of date from v1.8.9.
Your theme has a woocommerce.php file, you will not be able to override the woocommerce/archive-product.php custom template since woocommerce.php has priority over archive-product.php. This is intended to prevent display issues.
cooks/woocommerce/content-product.php version 2.6.1 is out of date. The core version is 3.0.0,
cooks/woocommerce/single-product/up-sells.php version 1.6.4 is out of date. The core version is 3.0.0
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