Mercurial > repos > trinity_ctat > ctat_genome_resource_libs_data_manager_3

changeset 9:1717c42112ed draft

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Uploaded
author trinity_ctat
date Sat, 23 Jun 2018 16:06:17 -0400
parents b2e6ed40840a
children a7cd51b60f58
files data_manager/add_ctat_resource_lib.py
diffstat 1 files changed, 9 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/data_manager/add_ctat_resource_lib.py	Sat Jun 23 15:40:54 2018 -0400
+++ b/data_manager/add_ctat_resource_lib.py	Sat Jun 23 16:06:17 2018 -0400
@@ -746,8 +746,13 @@
                                     destination=args.destination_path, \
                                     force_download=args.force_download)
     else:
+        if (args.build):
+            # Then the user wants to build the directory from the data
+            # in the location that was given in destination_path.
+            downloaded_directory = args.destination_path
         genome_build_directory = search_for_genome_build_dir(args.destination_path)
 
+    print "\nThe location of the downloaded_directory is {:s}.\n".format(str(downloaded_directory))
     print "\nThe location of the CTAT Genome Resource Library is {:s}.\n".format(genome_build_directory)
 
     # FIX - We should leave a file indicating build success the same way we do for download success.
@@ -756,9 +761,12 @@
     # That is why the gmap_build value is sent to build_the_library(), but if we are not building the
     # library, the user might still be asking for a gmap_build. That is done after rechecking for the
     # genome_build_directory.
-    if (download_has_source_data or args.build):
+    if (downloaded_directory is not None) and (download_has_source_data or args.build):
         build_the_library(downloaded_directory, genome_build_directory, True, args.gmap_build)
         lib_was_built = True
+    elif downloaded_directory is None:
+        print "No directory was downloaded and there is no source data, " + \
+            "so the Resource Library was not built (it may already be built)."
     # The following looks to see if the library actually exists after the build,
     # and raises an error if it cannot find the library files.
     # The reassignment of genome_build_directory should be superfluous,