Bioperl Introduction （bioperl简介）.ppt

perl Makefile.PL Check prerequisites required for bioperl installation Press “return” to accept the default “yes” and continue. Press “return” to accept the default “yes” and continue. Prerequisites were installed successfully. Enter “a” and press “enter” to accept the default option and continue. Press “enter” for all questions along with way Information about the installation of prerequisites Ignore the errors for now since these modules are optional Press “return” to accept the default options [a] for all, and continue. First step done! Type “make” and press “enter” to start building Second step done! Type “make test” and press “enter” to start testing Testing in progress… All tests are passed! Ignore any non-passed tests for now! Type “make install” and press “enter” to start installing Bioperl is successfully installed! Congratulations! Time to run a test to seewhether bioperl works Type “clear” and press “return” to clear the screen Use “cp” command to copy the test script “bioperl_installation_test.pl” to the current directory (.) Check if the file is executable (x in fourth position). If not, type “chmod +x bioperl_installation_test.pl” and press “enter”. Check it again to make sure that it is executable. To run a perl script, type $./bioperl_installation_test.pl Or $perl bioperl_installation_test.pl If you see “It works!!”, it works! If you see something else, the installation failed in the sense that the modules are not being loaded correctly. See the instructors for troubleshooting individually. Bioperl reading materials Bioperl tutorial: /wiki/Bptutorial.pl HOW-TOs /wiki/HOWTOs Example code, in the scripts/ and examples/ directories of a bioperl installation Online course written at the Pasteur Institute. http://www.pasteur.fr/recherche/unites/sis/formation/bioperl. Troubleshooting: If “FATAL ERROR” is encountered early in the installation through cygwin, double check the firewall settings on your computer (allow). If this does not perm