Mercurial > repos > cpt > cpt_convert_mga
changeset 13:c62acc3e4bf6 draft
planemo upload commit 852ac96ca53a2ffa0947e6df5e24671866b642f5
| author | cpt |
|---|---|
| date | Sat, 22 Jul 2023 17:15:42 +0000 |
| parents | 9c03867832fc |
| children | fa68b3ed5407 |
| files | all_fasta.loc.sample tool_data_table_conf.xml.sample |
| diffstat | 2 files changed, 26 insertions(+), 8 deletions(-) [+] |
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--- a/all_fasta.loc.sample Sat Jul 22 17:13:37 2023 +0000 +++ b/all_fasta.loc.sample Sat Jul 22 17:15:42 2023 +0000 @@ -1,8 +1,18 @@ -<!-- not a real sample --> -<tables> - <!-- 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" /> - </table> -</tables> \ No newline at end of file +#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. +# \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_data_table_conf.xml.sample Sat Jul 22 17:15:42 2023 +0000 @@ -0,0 +1,8 @@ +<!-- not a real sample --> +<tables> + <!-- 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" /> + </table> +</tables> \ No newline at end of file