I run these test with simple test.cgi and apache server respond fast.

Good - so the problem is just with your script. Now, when you run the script from the shell and from the web server there are 3 main differences:

• The user and group running the script
• The environment
• The context

You can test out the first of these by running the script from the shell as the user and group who execute the Apache processes (eg. with sudo). For the environment your best plan is to dump it from within the script and compare these dumps from running in both ways - shell and web. Any differences there may well be relevant. Also dump %INC at the end while you are at it as you may find that there are different versions of modules being loaded which can otherwise be tricky to spot. Finally, to see if the context is affecting operations, check the audit log.

You might also be interested to read through the Basic debugging checklist if you are not already familiar with it as there are some good practices and hints which may help.