Consider the following program- HydrophobicityProfiler.pl Here is a sample run of the program: perl HydrophobicityProfiler.pl Enter the name of the sequence file (try protein.txt) and then press Enter: ../data/protein.txt Enter the desired window size as an odd number and then press Enter: 5 Which method would you like to use (Kyte-Doolittle, Eisenberg, Hopp-Woods, Janin, or Rose): Eisenberg
The program sequentially asks the user for 3 parameters: name of sequence file; desired window size and method I tried to write a perl program that would use a filehandle to run HydrophobicityProfiler.pl. Here it is: #! /usr/bin/perl use strict; use warnings; open(HP, "|perl ./HydrophobicityProfiler.pl \n"); HP->autoflush(1); print HP "../data/protiein.txt \n"; print HP "5 \n"; print HP "Kyte-Doolittle \n"; close HP; Unfortunately this gives me a list of errors: perl handle_test.pl Can't locate object method "autoflush" via package "IO::Handle" at handle_test.pl line 7. anjan-purkayasthas-powerbook-g4-17:~/perl_directory/programs anjan$ Enter the name of the sequence file (try protein.txt) and then pr ess Enter: Use of uninitialized value in scalar chomp at ./HydrophobicityProfiler.pl line 20. Enter the desired window size as an odd number and then press Enter: Use of uninitialized value in scalar chomp at ./HydrophobicityProfiler.pl line 23. Which method would you like to use (Kyte-Doolittle, Eisenberg, Hopp-Woods, Janin, or Rose): Use of uninitialized value in scalar chomp at ./HydrophobicityProfiler.pl line 26. Use of uninitialized value in open at ./HydrophobicityProfiler.pl line 28. Cannot open the file: No such file or directory So my question is. Is it possible to write a program to run an interactive program using file handles? TIA, Anjan -- ANJAN PURKAYASTHA, PhD. Senior Computational Biologist ========================== 1101 King Street, Suite 310, Alexandria, VA 22314. 703.518.8040 (office) 703.740.6939 (mobile) email: [EMAIL PROTECTED]; [EMAIL PROTECTED] http://www.vbi.vt.edu ==========================
