Mercurial > repos > fubar > microsatbedfubar
changeset 3:67235512ab62 draft
planemo upload for repository https://github.com/fubar2/microsatbed commit 7ceb6658309a7ababe622b5d92e729e5470e22f0-dirty
| author | fubar |
|---|---|
| date | Sun, 14 Jul 2024 02:16:47 +0000 |
| parents | 12753df8dbb3 |
| children | e2e1e48a2e56 |
| files | all_fasta.loc.sample test-data/all_fasta.loc tool_data_table_conf.xml.sample tool_data_table_conf.xml.test |
| diffstat | 4 files changed, 8 insertions(+), 37 deletions(-) [+] |
line wrap: on
line diff
--- a/all_fasta.loc.sample Sat Jul 13 23:16:59 2024 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,18 +0,0 @@ -#This file lists the locations and dbkeys of all the fasta files -#under the "genome" directory (a directory that contains a directory -#for each build). The script extract_fasta.py will generate the file -#all_fasta.loc. This file has the format (white space characters are -#TAB characters): -# -#<unique_build_id> <dbkey> <display_name> <file_path> -# -#So, all_fasta.loc could look something like this: -# -#apiMel3 apiMel3 Honeybee (Apis mellifera): apiMel3 /path/to/genome/apiMel3/apiMel3.fa -#hg19canon hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19/hg19canon.fa -#hg19full hg19 Human (Homo sapiens): hg19 Full /path/to/genome/hg19/hg19full.fa -# -#Your all_fasta.loc file should contain an entry for each individual -#fasta file. So there will be multiple fasta files for each build, -#such as with hg19 above. -#
--- a/test-data/all_fasta.loc Sat Jul 13 23:16:59 2024 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,18 +0,0 @@ -#This file lists the locations and dbkeys of all the fasta files -#under the "genome" directory (a directory that contains a directory -#for each build). The script extract_fasta.py will generate the file -#all_fasta.loc. This file has the format (white space characters are -#TAB characters): -# -#<unique_build_id> <dbkey> <display_name> <file_path> -# -#So, all_fasta.loc could look something like this: -# -#apiMel3 apiMel3 Honeybee (Apis mellifera): apiMel3 /path/to/genome/apiMel3/apiMel3.fa -#hg19canon hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19/hg19canon.fa -#hg19full hg19 Human (Homo sapiens): hg19 Full /path/to/genome/hg19/hg19full.fa -# -#Your all_fasta.loc file should contain an entry for each individual -#fasta file. So there will be multiple fasta files for each build, -#such as with hg19 above. -#
--- a/tool_data_table_conf.xml.sample Sat Jul 13 23:16:59 2024 +0000 +++ b/tool_data_table_conf.xml.sample Sun Jul 14 02:16:47 2024 +0000 @@ -2,6 +2,6 @@ <!-- Locations of all fasta files under genome directory --> <table name="all_fasta" comment_char="#"> <columns>value, dbkey, name, path</columns> - <file path="tool-data/all_fasta.loc" /> + <file path="tool-data/all_fasta.loc.sample" /> </table> </tables>
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_data_table_conf.xml.test Sun Jul 14 02:16:47 2024 +0000 @@ -0,0 +1,7 @@ +<tables> + <!-- Locations of dbkeys and len files under genome directory --> + <table name="__dbkeys__" comment_char="#" allow_duplicate_entries="False"> + <columns>value, name, len_path</columns> + <file path="${__HERE__}/tool-data/all_fasta.loc.sample" /> + </table> +</tables>