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Peter Kerpedjiev edited this page Feb 3, 2017
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NOTE: These commands were run on an Ubuntu 16.04 LTS system w/ an 8 core Intel(R) Xeon(R) CPU E5-2666 v3 @ 2.90GHz and 16G of memory.
Table generated using Markdown Tables generator.
| Time | Input file | Command run | Output file |
|---|---|---|---|
| wgEncodeCrgMapabilityAlign24mer.bigWig (5.0G) | |||
| wgEncodeCrgMapabilityAlign75mer.bigWig(281M) |
| Conversion Time | Input file | Command run | Output file |
|---|---|---|---|
| 52m53.760s |
Dixon2012-H1hESC-HindIII-allreps-filtered.1kb.cool (262M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Dixon2012-H1hESC-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Dixon2012-H1hESC-HindIII-allreps-filtered.1kb.multires.cool (1.9G)
|
| 73m23.109s |
Dixon2012-IMR90-HindIII-allreps-filtered.1kb.cool (377M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Dixon2012-IMR90-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Dixon2012-IMR90-HindIII-allreps-filtered.1kb.multires.cool (3.1G)
|
| 155m46.509s |
Dixon2015-H1_hESC-HindIII-allreps-filtered.1kb.cool (865M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Dixon2015-H1_hESC-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Dixon2015-H1_hESC-HindIII-allreps-filtered.1kb.multires.cool (6.5G)
|
| 104m44.232s |
Dixon2015-H1_ME-HindIII-allreps-filtered.1kb.cool (619M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Dixon2015-H1_ME-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Dixon2015-H1_ME-HindIII-allreps-filtered.1kb.multires.cool (4.3G)
|
| 100m8.216s |
Dixon2015-H1_MS-HindIII-allreps-filtered.1kb.cool (522M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Dixon2015-H1_MS-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Dixon2015-H1_MS-HindIII-allreps-filtered.1kb.multires.cool (3.6G)
|
| 142m54.473s |
Dixon2015-H1_NP-HindIII-allreps-filtered.1kb.cool (713M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Dixon2015-H1_NP-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Dixon2015-H1_NP-HindIII-allreps-filtered.1kb.multires.cool (5.9G)
|
| 140m6.876s |
Dixon2015-H1_TB-HindIII-allreps-filtered.1kb.cool (607M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Dixon2015-H1_TB-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Dixon2015-H1_TB-HindIII-allreps-filtered.1kb.multires.cool (4.8G)
|
| 32m36.102s |
Jin2013-IMR90_Flavopiridol-HindIII-Rep1-filtered.1kb.cool,(245M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Jin2013-IMR90_Flavopiridol-HindIII-Rep1-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Jin2013-IMR90_Flavopiridol-HindIII-Rep1-filtered.1kb.multires.cool (2.0G)
|
| 153m24.129s |
Jin2013-IMR90-HindIII-allreps-filtered.1kb.cool (841M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Jin2013-IMR90-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Jin2013-IMR90-HindIII-allreps-filtered.1kb.multires.cool (6.6G)
|
| 211m16.367s |
Jin2013-IMR90_Tnfa-HindIII-allreps-filtered.1kb.cool[ (1.1G)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Jin2013-IMR90_Tnfa-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Jin2013-IMR90_Tnfa-HindIII-allreps-filtered.1kb.multires.cool (8.1G)
|
| 68m17.561s |
Rao2014-GM12878-DpnII-allreps-filtered.1kb.cool (422M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Rao2014-GM12878-DpnII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Rao2014-GM12878-DpnII-allreps-filtered.1kb.multires.cool (2.9G)
|
| 519m15.471s |
Rao2014-GM12878-MboI-allreps-filtered.1kb.cool,(3.5G)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Rao2014-GM12878-MboI-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Rao2014-GM12878-MboI-allreps-filtered.1kb.multires.cool (22G)
|
| 58m35.469s |
Rao2014-HMEC-MboI-allreps-filtered.1kb.cool (411M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Rao2014-HMEC-MboI-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Rao2014-HMEC-MboI-allreps-filtered.1kb.multires.cool (3.0G)
|
| 111m12.482s |
Rao2014-HUVEC-MboI-allreps-filtered.1kb.cool (570M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Rao2014-HUVEC-MboI-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Rao2014-HUVEC-MboI-allreps-filtered.1kb.multires.cool (4.2G)
|
| 186m45.778s |
Rao2014-IMR90-MboI-allreps-filtered.1kb.cool,(989M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Rao2014-IMR90-MboI-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Rao2014-IMR90-MboI-allreps-filtered.1kb.multires.cool (6.4G)
|
| 173m23.167s |
Rao2014-K562-MboI-allreps-filtered.1kb.cool (883M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Rao2014-K562-MboI-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Rao2014-K562-MboI-allreps-filtered.1kb.multires.cool (5.9G)
|
| 121m49.776s |
Rao2014-KBM7-MboI-allreps-filtered.1kb.cool (905M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Rao2014-KBM7-MboI-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Rao2014-KBM7-MboI-allreps-filtered.1kb.multires.cool (6.8G)
|
| 90m33.486s |
Rao2014-NHEK-MboI-allreps-filtered.1kb.cool (747M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Rao2014-NHEK-MboI-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Rao2014-NHEK-MboI-allreps-filtered.1kb.multires.cool (5.6G)
|
| 147m36.559s |
Selvaraj2013-GM12878-HindIII-allreps-filtered.1kb.cool (853M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Selvaraj2013-GM12878-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Selvaraj2013-GM12878-HindIII-allreps-filtered.1kb.multires.cool (6.9G)
|
| 81m56.599s |
Zuin2014-HEK293CtcfControl-HindIII-allreps-filtered.1kb.cool(431M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Zuin2014-HEK293CtcfControl-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Zuin2014-HEK293CtcfControl-HindIII-allreps-filtered.1kb.multires.cool (3.3G)
|
| 114m34.134s |
Zuin2014-HEK293CtcfDepleted-HindIII-allreps-filtered.1kb.cool (593M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Zuin2014-HEK293CtcfDepleted-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Zuin2014-HEK293CtcfDepleted-HindIII-allreps-filtered.1kb.multires.cool (4.6G)
|
| 92m14.533s |
Zuin2014-HEK293Rad21Cleaved-HindIII-allreps-filtered.1kb.cool (551M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Zuin2014-HEK293Rad21Cleaved-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Zuin2014-HEK293Rad21Cleaved-HindIII-allreps-filtered.1kb.multires.cool (4.6G)
|
| 86m33.637s |
Zuin2014-HEK293Rad21Control-HindIII-allreps-filtered.1kb.cool (514M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Zuin2014-HEK293Rad21Control-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Zuin2014-HEK293Rad21Control-HindIII-allreps-filtered.1kb.multires.cool (4.2G)
|
| 2m18.945s |
Ma2015-K562-DNAseHiC-combined.1kb.cool (32M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Ma2015-K562-DNAseHiC-combined.1kb.cool --data_type cooler --n_cpus 8 -c 10000000 |
Ma2015-K562-DNAseHiC-combined.1kb.multires.cool (128M)
|
| 65m33.591s |
Dixon2012-J1mESC-HindIII-allreps-filtered.1kb.cool (345M)
|
python ~/clodius/scripts/conversion_wrapper.py --assembly mm9 --input_file Dixon2012-J1mESC-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 8 -c 10000000 |
Dixon2012-J1mESC-HindIII-allreps-filtered.1kb.multires.cool (2.5G)
|
| 47m43.880s |
Dixon2012-J1-NcoI-R1-filtered.1kb.cool (203M)
|
python ~/clodius/scripts/conversion_wrapper.py --assembly mm9 --input_file Dixon2012-J1-NcoI-R1-filtered.1kb.cool --data_type cooler --n_cpus 8 -c 10000000 |
Dixon2012-J1-NcoI-R1-filtered.1kb.multires.cool (1.5G)
|
| 81m29.499s |
Rao2014-CH12LX-MboI-allreps-filtered.1kb.cool (570M)
|
python ~/clodius/scripts/conversion_wrapper.py --assembly mm9 --input_file Rao2014-CH12LX-MboI-allreps-filtered.1kb.cool --data_type cooler --n_cpus 8 -c 10000000 |
Rao2014-CH12LX-MboI-allreps-filtered.1kb.multires.cool (4.1G)
|
| 110m50.702s |
Selvaraj2013-F123-HindIII-allreps-filtered.1kb.cool (617M)
|
python ~/clodius/scripts/conversion_wrapper.py --assembly mm9 --input_file Selvaraj2013-F123-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 8 -c 10000000 |
Selvaraj2013-F123-HindIII-allreps-filtered.1kb.multires.cool (4.6G)
|
| 51m50.383s |
Shen2012-MouseCortex-HindIII-allreps-filtered.1kb.cool (391M)
|
python ~/clodius/scripts/conversion_wrapper.py --assembly mm9 --input_file Shen2012-MouseCortex-HindIII-allreps-filtered.1kb.cool --data_type cooler --n_cpus 8 -c 10000000 |
Shen2012-MouseCortex-HindIII-allreps-filtered.1kb.multires.cool (3.3G)
|
| 4m42.969s |
Aiden2009.GM06990.HindIII.1kb.cool (65M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Aiden2009.GM06990.HindIII.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Aiden2009.GM06990.HindIII.1kb.multires.cool (362M)
|
| 21m7.583s |
Kalhor2012.GM12878.HindIII.1kb.cool (206M)
|
python ~/clodius/scripts/conversion_wrapper.py --input_file Kalhor2012.GM12878.HindIII.1kb.cool --data_type cooler --n_cpus 2 -c 10000000 |
Kalhor2012.GM12878.HindIII.1kb.multires.cool (1.2G)
|
| Run from: |
workon clodius-env
cd /data/cooler_multires
base_path=../original_coolers/
file=Rao2014-GM12878-MboI-allreps-filtered.1kb.cool
data_type=cooler
assembly=hg19
time python ~/clodius/scripts/conversion_wrapper.py \
--assembly "hg19" \
--input_file $base_path$file \
--data_type $data_type \
--n_cpus 4 \
-c 10000000 \
> $file.out 2>&1