I have couple of reports created in web report studio that i need to execute using command line. I used Batch Execution Tool and there was no problem, pdfs were created but the problem is that now i cant put those reports onto portal they are marked as reportname.srx(report)batch and i cant find them in the portal any more.
This is not an ODS or Base Reporting procedure (PRINT, REPORT, TABULATE) question. What you are doing with Web Report Studio and creating batch .srx (SASReport XML) files falls under the category of an Enterprise Intelligence Platform question and is best answered by Tech Support, because your choice of webDAV repository or configuration issues may affect the answer. Or, if you want to create PDF files in the Portal, then you will need to make sure that you generate an HTTP header to indicate to the web client that it is receiving a PDF file.
To send a question to Tech Support, go to http://support.sas.com/ and in the left-hand navigation pane, click on the link entitled "Submit a Problem".