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- Timestamp:
-
07/16/10 14:08:56 (14 years ago)
- Author:
-
wmoore
- Comment:
-
Legend:
- Unmodified
- Added
- Removed
- Modified
-
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initial
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v1
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| 2 | 2 | |
| 3 | 3 | For each EMDB entry, store |
| 4 | | * mrc maps as Images in OMERO |
| 5 | | * emd.xml metadata |
| 6 | | * pdb structures, if maps have been fitted. |
| 7 | | * gif image of structure, for preview |
| 8 | | * bit masks (file.bit) in Ingvar's format |
| | 4 | |
| | 5 | * Project, named by EMDB-id. E.g. 1006. Attach to Project: |
| | 6 | * emd.xml metadata |
| | 7 | * pdb structures, if maps have been fitted. |
| | 8 | * gif image of structure, for preview |
| | 9 | * bit masks (file.bit) in Ingvar's format |
| | 10 | * Dataset. |
| | 11 | * Image (mrc map) |
| | 12 | |
| | 13 | Use curl script (below) to download data from EMDB. |
| | 14 | |
| | 15 | Use a Python script to populate OMERO with the data. |
| | 16 | |
| | 17 | {{{ |
| | 18 | set -v |
| | 19 | |
| | 20 | baseurl="ftp://emdb-beta.emdatabank.org/structures" |
| | 21 | |
| | 22 | for ((i=1001; i<1007; i++)) |
| | 23 | do |
| | 24 | |
| | 25 | echo "downloading $i" |
| | 26 | |
| | 27 | curl -O "$baseurl/EMD-$i/header/emd-$i.xml" |
| | 28 | curl -O "$baseurl/EMD-$i/images/$i.gif" |
| | 29 | curl -O "$baseurl/EMD-$i/map/emd_$i.map.gz" |
| | 30 | done |
| | 31 | }}} |
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