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/*****************************************************************************
*
* fdef.c
* test program for sequence display, SeqPort and ToFasta
*
*****************************************************************************/
#include <objfdef.h>
#include <sequtil.h>
void BuildList (SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
Int2 Main(void)
{
AsnIoPtr aip;
SeqEntryPtr sep;
FILE* fp;
MonitorPtr mon;
CharPtr groupname, featlabel, feattypelabel, featmenu;
Uint1 groupkey, ftype;
FeatDefPtr fdp;
FeatDispGroupPtr fdgp;
mon = MonitorStrNew("fdef", 40);
SetProgMon(StdProgMon, (Pointer)mon);
/*
** Load SeqEntry object loader and sequence alphabets
*/
if (! SeqEntryLoad()) {
Message(MSG_ERROR, "SeqEntryLoad failed");
return 1;
}
/*
** Use the file "example.prt" as the ASN I/O stream. This file
** can be found in the ncbi/demo. It is in ASN.1 Print Value format.
*/
if ((aip = AsnIoOpen("example.prt", "r")) == NULL)
return 1;
/*
** Write the output to "stdout".
*/
fp = FileOpen("stdout", "w");
/*
** Read in the whole entry into the Sequence Entry Pointer, sep.
** Close the ASN stream, which in turn closes the input file.
*/
sep = SeqEntryAsnRead(aip, NULL);
aip = AsnIoClose(aip);
mon = MonitorFree(mon);
SetProgMon(NULL, NULL);
if (FeatDefSetLoad() == NULL)
{
Message(MSG_ERROR, "Couldn't FeatDefSetLoad");
return 0;
}
fdgp = NULL;
while ((fdgp = DispGroupFindNext(fdgp, &groupkey, &groupname)))
{
fprintf(fp, "[%d] %s\n", (int)groupkey, groupname);
fdp = NULL;
while ((fdp = FeatDefFindNext(fdp, &ftype, &featmenu, groupkey, TRUE))
!= NULL)
{
fprintf(fp, " [%d] %s\n", (int)ftype, featmenu);
}
}
fprintf(fp, "\n");
SeqEntryExplore(sep, fp, BuildList);
SeqEntryFree(sep);
FileClose(fp);
return 0;
}
void BuildList(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent)
{
BioseqPtr bsp;
BioseqSetPtr bssp;
SeqAnnotPtr sap;
SeqFeatPtr sfp;
FILE *fp;
CharPtr typelabel, label;
Uint1 ftype;
fp = (FILE *)data;
if (IS_Bioseq(sep))
{
bsp = (BioseqPtr)(sep->data.ptrvalue);
sap = bsp->annot;
}
else
{
bssp = (BioseqSetPtr)(sep->data.ptrvalue);
sap = bssp->annot;
}
while (sap != NULL)
{
if (sap->type == 1)
{
for (sfp = (SeqFeatPtr)(sap->data); sfp != NULL; sfp = sfp->next)
{
ftype = FindFeatDefType(sfp);
typelabel = FeatDefTypeLabel(sfp);
label = FeatDefLabel(sfp);
if (typelabel == NULL) typelabel = "(null)";
if (label == NULL) label = "(null)";
fprintf(fp, "[%d] [%s] [%s]\n", (int)ftype, typelabel, label);
}
}
sap = sap->next;
}
return;
}
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