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... | @@ -7,7 +7,7 @@ Future versions might compute a real MSA-based clusering directly with Rfamseq n | ... | @@ -7,7 +7,7 @@ Future versions might compute a real MSA-based clusering directly with Rfamseq n |
7 | This script prepares the dataset from available public data in PDB and Rfam. | 7 | This script prepares the dataset from available public data in PDB and Rfam. |
8 | 8 | ||
9 | 9 | ||
10 | -**Please cite**: *Coming soon, expect it summer 2020* | 10 | +**Please cite**: *Coming soon, expect it in 2021* |
11 | 11 | ||
12 | # What it does | 12 | # What it does |
13 | The script follows these steps: | 13 | The script follows these steps: |
... | @@ -72,7 +72,7 @@ You need to install: | ... | @@ -72,7 +72,7 @@ You need to install: |
72 | 72 | ||
73 | ## Command line | 73 | ## Command line |
74 | Run `./RNANet.py --3d-folder path/to/3D/data/folder --seq-folder path/to/sequence/data/folder [ - other options ]`. | 74 | Run `./RNANet.py --3d-folder path/to/3D/data/folder --seq-folder path/to/sequence/data/folder [ - other options ]`. |
75 | -It requires solid hardware to run. It takes around 15 hours the first time, and 9h then, tested on a server with 32 cores and 48GB of RAM. | 75 | +It requires solid hardware to run. It takes around around 12 to 15 hours the first time, and 1 to 3h then, tested on a server with 32 cores and 48GB of RAM. |
76 | The detailed list of options is below: | 76 | The detailed list of options is below: |
77 | 77 | ||
78 | ``` | 78 | ``` | ... | ... |
... | @@ -1026,7 +1026,7 @@ class Pipeline: | ... | @@ -1026,7 +1026,7 @@ class Pipeline: |
1026 | print(f"nohup bash -c 'time {runDir}/RNAnet.py --3d-folder ~/Data/RNA/3D/ --seq-folder ~/Data/RNA/sequences -s --archive' &") | 1026 | print(f"nohup bash -c 'time {runDir}/RNAnet.py --3d-folder ~/Data/RNA/3D/ --seq-folder ~/Data/RNA/sequences -s --archive' &") |
1027 | sys.exit() | 1027 | sys.exit() |
1028 | elif opt == '--version': | 1028 | elif opt == '--version': |
1029 | - print("RNANet 1.0 alpha ") | 1029 | + print("RNANet 1.1 beta") |
1030 | sys.exit() | 1030 | sys.exit() |
1031 | elif opt == "-r" or opt == "--resolution": | 1031 | elif opt == "-r" or opt == "--resolution": |
1032 | assert float(arg) > 0.0 and float(arg) <= 20.0 | 1032 | assert float(arg) > 0.0 and float(arg) <= 20.0 | ... | ... |
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