Hi all,

I am using ghost-tree to create a hybrid tree from a foundation tree.

I have created all the necessary files: EXTENSION_TREES_OTU_MAP tab delimited file EXTENSION_TREES_TAXONOMY_FILE tab delimited file EXTENSION_TREES_SEQUENCE_FILE fasta FOUNDATION_TREE_FILE newick FOUNDATION_TAXONOMY_FILE tab delimited GHOST_TREE_OUTPUT_FOLDER

everything in the same directory However, when I run :

ghost-tree scaffold hybrid-tree-foundation-tree \  EXTENSION_TREES_OTU_MAP \EXTENSION_TREE_TAXONOMY\EXTENSION_TREES_SEQUENCE_FILE \FOUNDATION_TREE_FILE \FOUNDATION_TAXONOMY_FILE \GHOST_TREE_OUTPUT_FOLDER

I get this error: Error: Invalid value for "EXTENSION_TREES_OTU_MAP": Could not open file: EXTENSION_TREES_OTU_MAP: No such file or directory

Does anyone know why?

Thanks a lot!!!