diff GEMBASSY-1.0.3/src/gpalindrome.c @ 2:8947fca5f715 draft default tip

Uploaded

--- a/GEMBASSY-1.0.3/src/gpalindrome.c	Fri Jun 26 05:20:29 2015 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,131 +0,0 @@
-/******************************************************************************
-** @source gpalindrome
-**
-** Searches palindrome sequences
-**
-** @author Copyright (C) 2012 Hidetoshi Itaya
-** @version 1.0.3
-** @modified 2012/1/20  Hidetoshi Itaya  Created!
-** @modified 2013/6/16  Revision 1
-** @modified 2015/2/7   Refactor
-** @@
-**
-** This program is free software; you can redistribute it and/or
-** modify it under the terms of the GNU General Public License
-** as published by the Free Software Foundation; either version 2
-** of the License, or (at your option) any later version.
-**
-** This program is distributed in the hope that it will be useful,
-** but WITHOUT ANY WARRANTY; without even the implied warranty of
-** MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-** GNU General Public License for more details.
-**
-** You should have received a copy of the GNU General Public License
-** along with this program; if not, write to the Free Software
-** Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA  02111-1307, USA.
-******************************************************************************/
-
-#include "emboss.h"
-#include "soapH.h"
-#include "GLANGSoapBinding.nsmap"
-#include "soapClient.c"
-#include "soapC.c"
-#include "../gsoap/stdsoap2.c"
-#include "glibs.h"
-
-
-
-
-/* @prog gpalindrome **********************************************************
-**
-** Searches palindrome sequences
-**
-******************************************************************************/
-
-int main(int argc, char *argv[])
-{
-  embInitPV("gpalindrome", argc, argv, "GEMBASSY", "1.0.3");
-
-  struct soap soap;
-  struct ns1__palindromeInputParams params;
-
-  AjPSeqall seqall;
-  AjPSeq    seq;
-  AjPStr    inseq = NULL;
-  AjPStr    seqid = NULL;
-  ajint	    shortest = 0;
-  ajint	    loop = 0;
-  AjBool    gtmatch = 0;
-
-  char *in0;
-  char *result;
-
-  AjPFile outf = NULL;
-
-  seqall   = ajAcdGetSeqall("sequence");
-  shortest = ajAcdGetInt("shortest");
-  loop     = ajAcdGetInt("loop");
-  gtmatch  = ajAcdGetBoolean("gtmatch");
-  outf     = ajAcdGetOutfile("outfile");
-
-  params.shortest = shortest;
-  params.loop     = loop;
-  params.gtmatch  = gtmatch;
-  params.output   = "f";
-
-  while(ajSeqallNext(seqall, &seq))
-    {
-      soap_init(&soap);
-
-      inseq = NULL;
-
-      ajStrAppendC(&inseq, ">");
-      ajStrAppendS(&inseq, ajSeqGetNameS(seq));
-      ajStrAppendC(&inseq, "\n");
-      ajStrAppendS(&inseq, ajSeqGetSeqS(seq));
-
-      ajStrAssignS(&seqid, ajSeqGetAccS(seq));
-
-      in0 = ajCharNewS(inseq);
-
-      if(soap_call_ns1__palindrome(
-				  &soap,
-                                   NULL,
-                                   NULL,
-				   in0,
-                                  &params,
-                                  &result
-				  ) == SOAP_OK)
-        {
-          ajFmtPrintF(outf, "Sequence: %S\n", seqid);
-
-          if(!gFileOutURLC(result, &outf))
-            {
-              ajDie("File downloading error from:\n%s\n", result);
-              embExitBad();
-            }
-        }
-      else
-        {
-          soap_print_fault(&soap, stderr);
-        }
-
-      soap_destroy(&soap);
-      soap_end(&soap);
-      soap_done(&soap);
-
-      AJFREE(in0);
-
-      ajStrDel(&inseq);
-    }
-
-  ajFileClose(&outf);
-
-  ajSeqallDel(&seqall);
-  ajSeqDel(&seq);
-  ajStrDel(&seqid);
-
-  embExit();
-
-  return 0;
-}