diff test-data/databases/frogs_picrust2_functions.loc @ 0:c5fd7b97c2a4 draft default tip

planemo upload for repository https://github.com/geraldinepascal/FROGS-wrappers/ commit 78ca62b54aee22893d278d9c3d495527be405f8a

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/databases/frogs_picrust2_functions.loc	Wed Feb 04 13:17:34 2026 +0000
@@ -0,0 +1,45 @@
+# Copyright (C) 2022 INRA
+#
+# This program is free software: you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation, either version 3 of the License, or
+# (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with this program.  If not, see <http://www.gnu.org/licenses/>.
+#
+#
+#This is a sample file that enables tools FROGS_frogsfunc_copynumbers to predict 
+#the copy number of gene families present in the predicted genome for OTU, 
+# given a tree and a set of known trait values (FROGS_frogsfunc_placeseqs).
+#
+#PICRUSt2 files are present in the arborescence of PICRUSt2. 
+#
+#<value_as_marker_gene>	<name_as_fun_db>	<fun_db_or_path_to_marker_copy_numbers>	<fun_db_or_path_to_fun_copy_numbers>	<version>
+
+# For 16S data (see the 6 first lines), PICRUSt2 only takes the db name of the database as input (for exemple EC).
+# With ITS and 18S data, you have to specify the path of marker gene counts files.
+#
+#
+# Bellow you will find out how to implement this loc file.
+#
+# The indicated path is the one if you do not change the default galaxy config of conda directory.
+# Just adapt path by replacing <Galaxy_dir> with the real path and eventually the picrust version.
+#
+# If you are not using this default conda behavior, please consult PICRUSt2 documentation to find out where they are located in your environment.
+#
+#
+#
+# EXAMPLE FOR TEST :
+16S	EC	EC	EC	2.5.1
+16S	KO	KO	KO	2.5.1
+16S	PFAM	PFAM	PFAM	2.5.1
+16S	COG	COG	COG	2.5.1
+16S	TIGRFAM	TIGRFAM	TIGRFAM	2.5.1
+16S	PHENO	PHENO	PHENO	2.5.1
+ITS	EC	${__HERE__}/frogs_picrust2_db/prokaryotic/16S_test.txt.gz	${__HERE__}/frogs_picrust2_db/prokaryotic/ec_test.txt.gz	2.5.1
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