[CQT-411] Check dependency upgrades

[elenbaasc]

Upgrade:

• numpy to >=2.2.6
• networkx to >=3.4.2
• scipy to >=1.15.3
• coverage to >=7.10.7,<8
• pytest to >=8.4.2,<9
• mypy to >=1.18.2,<2
• ruff to >=0.13.2,<0.14
• tox to >=4.30.2,<5
• sympy to >=1.14.0,<2
• IPython to >=8.37,<9
• quantify-scheduler to ==0.23.1; sys_platform != 'darwin'
• docs group

[davidbakker123]

Not much to add here. Looks good.