Index file and output file have different size, index out of date?
A previous indexed file already exists but does not fit with the original datafile. Find which one of both file is the newer (indexed or datafile). If you want to recreate an index from an old datafile, use -iforce option to force the script to remove old index file and create a new one. • ERROR: Cannot convert XX, hmmconvert binary does not exist or not executable : No such file or directory Check that your bin/binaries/hmmconvert binary exists or the soft link you could have created is there. • Blast indexing ERROR on prodom.ipr : FormatBlastDB: Formatdb command [YYY] failed: No such file or directory at ./index_data.pl line 219.: This can happen even if you have the files in your data directory. Check that the file exists, if it is there, check that you have a soft link in the bin directory called “binaries” which points to the directory containing binaries for your platform (if you do not select any applications when installing, this soft link is not created automatically).