IRIX (gcg2) login: petang Password: IRIX Release 6.5 IP27 gcg2 Copyright 1987-2001 Silicon Graphics, Inc. All Rights Reserved. Last login: Tue Mar 18 07:33:58 CST 2003 by UNKNOWN@61.56.239.132 ********************************************************************** * WELCOME TO THE NHRI GCG SERVER ! * * * * * * Type go to start the GCG Package ! * * === * * * * Type gcgm to start the manual driven GCG Package ! * * === * * * * Online help: % genhelp or http://gcg.nhri.org.tw * * * * problem report by email: gcg@nhri.org.tw * * * ********************************************************************** You have mail. Welcome to the WISCONSIN PACKAGE Version 10.3-UNIX Installed on irix Copyright (c) 1982 - 2001, Accelrys Inc. A wholly owned subsidiary of Pharmacopeia, Inc. All rights reserved. Published research assisted by this software should cite: Wisconsin Package Version 10.3, Accelrys Inc., San Diego, CA Databases available: GenBank Release 133.0 (12/2002) EMBL (Abridged) Release 73.0 (12/2002) GenPept Release 133.0 (12/2002) PIR-Protein Release 74.05 (12/2002) NRL_3D Release 28.0 (01/2001) SWISS-PROT Release 40.38 (12/2002) SP-TREMBL Release 22.0 (10/2002) PROSITE Release 17.31 (12/2002) Pfam Release 7.8 (12/2002) Restriction Enzymes (REBASE) (12/2002) Technical support see: http://www.accelrys.com/support/ Online help: % genhelp or http://www.accelrys.com/support/bio/genhelp/ GCG System Support Environment Initialized. gcg2% go Welcome to the WISCONSIN PACKAGE Version 10.3-UNIX Installed on irix Copyright (c) 1982 - 2001, Accelrys Inc. A wholly owned subsidiary of Pharmacopeia, Inc. All rights reserved. Published research assisted by this software should cite: Wisconsin Package Version 10.3, Accelrys Inc., San Diego, CA Databases available: GenBank Release 133.0 (12/2002) EMBL (Abridged) Release 73.0 (12/2002) GenPept Release 133.0 (12/2002) PIR-Protein Release 74.05 (12/2002) NRL_3D Release 28.0 (01/2001) SWISS-PROT Release 40.38 (12/2002) SP-TREMBL Release 22.0 (10/2002) PROSITE Release 17.31 (12/2002) Pfam Release 7.8 (12/2002) Restriction Enzymes (REBASE) (12/2002) Technical support see: http://www.accelrys.com/support/ Online help: % genhelp or http://www.accelrys.com/support/bio/genhelp/ GCG System Support Environment Initialized. gcg2% cd TEMP gcg2% ls legumain.fastan legumain.gb legumain.naq.txt legumain.fastap legumain.gp legumain.psq.txt gcg2% chopup legumain.psq.txt ChopUp converts a non-GCG sequence file containing lines longer than 511 characters and as long as 32,000 characters into a new file containing lines no longer than 50 characters. The new file can be read by Reformat to create a GCG-format sequence file. What should I call the chopped file (* legumain.psq.dat *) ? All of "legumain.psq.txt" chopped up without error! gcg2% reformat legumain.psq.dat Reformat rewrites sequence file(s), scoring matrix file(s), or enzyme data file(s) so that they can be read by GCG programs. No ".." divider legumain.psq.dat length: 433 aa gcg2% chopup legumain.naq.txt ChopUp converts a non-GCG sequence file containing lines longer than 511 characters and as long as 32,000 characters into a new file containing lines no longer than 50 characters. The new file can be read by Reformat to create a GCG-format sequence file. What should I call the chopped file (* legumain.naq.dat *) ? All of "legumain.naq.txt" chopped up without error! gcg2% reformat legumain.naq.dat Reformat rewrites sequence file(s), scoring matrix file(s), or enzyme data file(s) so that they can be read by GCG programs. No ".." divider legumain.naq.dat length: 1981 bp gcg2% fromgenbank FromGenBank reformats one or more sequences in the flat file format of the GenBank database into individual sequence files in GCG format. Reformat what GenBank data file? legumain.gb lgmn.seq 1981 bp. reformatted: legumain.gb total files: 1 total bases: 1981 gcg2% fromgenbank FromGenBank reformats one or more sequences in the flat file format of the GenBank database into individual sequence files in GCG format. Reformat what GenBank data file? legumain.gp lgmn.pep 433 aa. reformatted: legumain.gp total files: 1 total bases: 433 gcg2% fromfasta FromFastA reformats one or more sequences from FastA format into single sequence files in GCG format. FROMFASTA of what FastA sequence file(s) ? legumain.fastan gi-21914880.seq 1981 bp. Finished FROMFASTA with 1 files written. 1981 sequence characters were reformatted. gcg2% fromfasta legumain.fastap FromFastA reformats one or more sequences from FastA format into single sequence files in GCG format. gi-21914881.pep 433 aa. Finished FROMFASTA with 1 files written. 433 sequence characters were reformatted. gcg2% ls gi-21914880.seq legumain.fastap legumain.naq.dat legumain.psq.txt gi-21914881.pep legumain.gb legumain.naq.txt lgmn.pep legumain.fastan legumain.gp legumain.psq.dat lgmn.seq gcg2%