struct pipeline *textOutInit(char *fileName, char *compressType)
/* Set up stdout to be HTTP text, file (if fileName is specified), or
* compressed file (if both fileName and compressType are specified --
* see textOut.h for supported compression types).
* Return NULL if no compression, otherwise a pipeline handle on which
* textOutClose should be called when we're done writing stdout. */
{
struct pipeline *compressPipeline = NULL;
trimSpaces(fileName);
if (isEmpty(fileName))
{
printf("Content-Type: text/plain\n\n");
}
else if (isEmpty(compressType) || sameWord(compressType, textOutCompressNone))
{
printf("Content-Type: application/octet-stream\n");
printf("Content-Disposition: attachment; filename=%s\n\n", fileName);
}
else
{
char *suffix = getCompressSuffix(compressType);
printf("Content-Type: application/x-%s\n", compressType);
if (endsWith(fileName, suffix))
printf("Content-Disposition: attachment; filename=%s\n\n", fileName);
else
printf("Content-Disposition: attachment; filename=%s%s\n\n",
fileName, suffix);
/* Send the Content header uncompressed! */
fflush(stdout);
/* Make sure no environment variables interfere with compressor. */
cleanEnvVars(compressType);
/* Redirect stdout to compressor pipeline object. */
compressPipeline = pipelineOpen1(getCompressor(compressType),
pipelineWrite, NULL, NULL);
if (-1 == dup2(pipelineFd(compressPipeline), STDOUT_FILENO))
errnoAbort("dup2(pipelineFd %d, stdout %d) failed in textOpen()",
pipelineFd(compressPipeline), STDOUT_FILENO);
}
pushWarnHandler(textOutWarnHandler);
pushAbortHandler(textOutAbortHandler);
return(compressPipeline);
}
void gsSendToDM()
/* upload the generated file to DM */
{
// This is now run via fork/exec as a separate background process.
char *trashFileName = cartUsualString(cart, "gsTemp", "");
char *fileName = cartUsualString(cart, hgtaOutFileName, "");
// adjust upload name based on compression and existing extension
char *compressType = cartUsualString(cart, hgtaCompressType, textOutCompressNone);
if (!(isEmpty(compressType) || sameWord(compressType, textOutCompressNone)))
{
char *suffix = getCompressSuffix(compressType);
if (!endsWith(fileName, suffix))
fileName = addSuffix(fileName, suffix);
}
off_t fSize = fileSize(trashFileName);
char *gsToken = cartUsualString(cart, "gsToken", NULL);
char *contentType = "text/plain"; // some examples show applicaton/octet-stream
char *persDir = getGsPersonalDirectory(gsToken);
char *user = strrchr(persDir,'/');
++user;
char nicenumber[1024]="";
sprintWithGreekByte(nicenumber, sizeof(nicenumber), fSize);
htmlOpen("Uploading Output to GenomeSpace");
printf("Name: %s<br>\n", fileName);
printf("Size: %s<br>\n", nicenumber);
printf("Progress: 0%%<br>\n");
printf("You can remain on this page and monitor upload progress.<br>\n");
printf("Otherwise, feel free to continue working, and your output will appear in GenomeSpace when the upload is complete.<br>\n");
printf("<br>\n");
printf("<FORM ACTION=\"/cgi-bin/hgTables\" METHOD=GET>\n"
"<INPUT TYPE=SUBMIT NAME=\"%s\" VALUE=\"Back\" >\n"
"<INPUT TYPE=SUBMIT NAME=\"Refresh\" VALUE=\"Refresh\" onclick='window.location=window.location;return false;' >"
"</FORM>\n"
, hgtaDoMainPage);
puts("<script type=\"text/JavaScript\">");
puts("<!--");
puts("setTimeout(\"location = location;\",5000);");
puts("-->");
puts("</script>");
htmlClose();
fflush(stdout);
// MD5 COMPUTE
unsigned char md5[16]; /* Keep the md5 checksum here. */
md5ForFile(trashFileName,md5);
char *hexMd5 = md5ToHex(md5);
char *base64Md5 = base64Encode((char*)md5, 16);
char *s3UploadUrl = gsUploadUrl(gsToken, user, fileName, fSize, base64Md5, contentType);
char *s3Response = gsS3Upload(s3UploadUrl, trashFileName, fSize, base64Md5, hexMd5, contentType, TRUE, fileName);
if (sameString(s3Response,""))
{
// Reset global flags before drawing brand new page
webHeadAlreadyOutputed = FALSE;
webInTextMode = FALSE;
includedResourceFiles = NULL;
htmlWarnBoxSetUpAlready=FALSE;
htmlOpen("Uploaded Output to GenomeSpace");
printf("Name: %s<br>\n", fileName);
printf("Size: %s<br>\n", nicenumber);
printf("Output has been successfully uploaded.<br>\n");
printf("<br>");
printf("<FORM ACTION=\"/cgi-bin/hgTables\" METHOD=GET>\n"
"<INPUT TYPE=SUBMIT NAME=\"%s\" VALUE=\"Back\" ></FORM>\n"
, hgtaDoMainPage);
htmlClose();
fflush(stdout);
}
//printf("s3UploadUrl [%s]", s3UploadUrl);
//printf("<br>");
//printf("s3Response [%s]", s3Response);
//printf("<br>");
exit(0); // CANNOT RETURN
}
struct pipeline *textOutInit(char *fileName, char *compressType, int *saveStdout)
/* Set up stdout to be HTTP text, file (if fileName is specified), or
* compressed file (if both fileName and compressType are specified --
* see textOut.h for supported compression types).
* Return NULL if no compression, otherwise a pipeline handle on which
* textOutClose should be called when we're done writing stdout. */
{
struct pipeline *compressPipeline = NULL;
// if path contains a slash, we are outputting to a local file
boolean outToFile = (strchr(fileName, '/') != NULL);
if (outToFile)
{
FILE *f;
f = fopen(fileName, "w");
/* We want to capture stdout output to a file */
fflush(stdout);
int tempOut = dup(STDOUT_FILENO);
if (saveStdout)
*saveStdout = tempOut;
dup2(fileno(f),STDOUT_FILENO); /* closes STDOUT before setting it again */
fclose(f);
}
trimSpaces(fileName);
if (isEmpty(fileName))
{
printf("Content-Type: text/plain\n\n");
}
else if (isEmpty(compressType) || sameWord(compressType, textOutCompressNone))
{
if (!outToFile)
{
printf("Content-Type: application/octet-stream\n");
printf("Content-Disposition: attachment; filename=%s\n\n", fileName);
}
}
else
{
if (!outToFile)
{
char *suffix = getCompressSuffix(compressType);
printf("Content-Type: application/x-%s\n", compressType);
if (endsWith(fileName, suffix))
printf("Content-Disposition: attachment; filename=%s\n\n", fileName);
else
printf("Content-Disposition: attachment; filename=%s%s\n\n",
fileName, suffix);
/* Send the Content header uncompressed! */
fflush(stdout);
}
/* Make sure no environment variables interfere with compressor. */
cleanEnvVars(compressType);
/* Redirect stdout to compressor pipeline object. */
compressPipeline = pipelineOpen1(getCompressor(compressType),
pipelineWrite, NULL, NULL);
if (-1 == dup2(pipelineFd(compressPipeline), STDOUT_FILENO))
errnoAbort("dup2(pipelineFd %d, stdout %d) failed in textOpen()",
pipelineFd(compressPipeline), STDOUT_FILENO);
}
pushWarnHandler(textOutWarnHandler);
pushAbortHandler(textOutAbortHandler);
return(compressPipeline);
}
