<HTML><HEAD><META content="text/html; charset=x-user-defined" http-equiv="Content-Type"><style type="text/css"><!--.MailHeader { font-family: "Arial"; font-size: 8pt; color: #000000; font-style: normal; font-weight: normal; text-decoration: none; }//--></style></HEAD><BODY><font face="Arial" size="2"><br ><br >Hi,<br ><br >You need to specify the input file with -f flag and -i is for the itp file which is the output and that is any way created by default. Just remove -i from the command and it will work.<br ><br >best,<br ><br >sharada<br ></font><font face="Arial" size="2"><TABLE STYLE="border-color: blue; border-left: 1px solid blue; padding-left: 5px;"><tbody><TR><TD><br ><strong><em>-- Original Message --</em></strong><br >From: Asmaa Elsheshiny <pyaaea@leeds.ac.uk><br >To: "gmx-users@gromacs.org" <gmx-users@gromacs.org><br >Date: Thu, 1 Oct 2009 11:36:43 +0100<br >Subject: [gmx-users] pdb2gmx<br ><br >Dear All,<br ><br >I tried to use the following command line<br ><br >pdb2gmx -f -i brady.pdb -o brady.gro -p brady.top -ignh<br ><br >But I get the following error massage<br ><br >File input/output error:<br >eiwit.pdb<br ><br >So I tried to modify aminoacides.dat to include all the required aminoacids residues but , I failed because these files are readonly .<br >So, How can I fix this problem.<br ><br >Cheers,<br >Asmaa<br >_______________________________________________<br >gmx-users mailing list gmx-users@gromacs.org<br >http://lists.gromacs.org/mailman/listinfo/gmx-users<br >Please search the archive at http://www.gromacs.org/search before posting!<br >Please don't post (un)subscribe requests to the list. Use the<br >www interface or send it to gmx-users-request@gromacs.org.<br >Can't post? Read http://www.gromacs.org/mailing_lists/users.php<br ></TD></TR></tbody></TABLE></font></BODY></HTML>