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sample result for dpulex
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Hyungro Lee committed Jul 6, 2015
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76 changes: 55 additions & 21 deletions docs/source/results.rst
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Original file line number Diff line number Diff line change
Expand Up @@ -108,21 +108,22 @@ Evaluation
- LTR
- Options
* - MGEScan1.3.1
- 4 hrs 5mins (14,697 secs)
- 1hr 8mins (4,127 secs)
- 2 hrs 57 mins (10,570 secs)
- 3 hrs 34 mins (12,837 secs)
- 21 mins (1,256 secs)
- 3hrs 13 mins (11,581 secs)
- HMMER 2.3.2, no MPI
* - MGEScan2
- 2 hrs 36 mins (9,414 secs)
- 46 mins (2,780 secs)
- 2 hrs 36 mins (9,414 secs)
- 4 hrs 5 mins (14,727 secs)
- 9 mins (503 secs)
- 4hrs 5 mins (14,727 secs)
- HMMER 3.1b1, no MPI
* - MGEScan2 with MPI
- 1hr 3mins (3,823 secs)
- 4 mins (222 secs)
- 1 hr 3mins (3,823 secs)
- 1hr 22mins (4,897 secs)
- 3 mins (182 secs)
- 1 hr 22 mins (4,897 secs)
- HMMER 3.1b1, MPI with 4 processors


Extra Files
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^

Expand All @@ -148,22 +149,55 @@ Evaluation
- LTR
- Options
* - MGEScan1.3.1
- 3 hrs 34 mins (12,837 secs)
- 21 mins (1,256 secs)
- 3hrs 13 mins (11,581 secs)
- 45 hrs 12 mins (162,723 secs)
- 6 hrs 34 mins (23,644 secs)
- 38 hrs 37 mins (139,079 secs)
- HMMER 2.3.2
* - MGEScan2
- 67 hrs 13 mins (242,002 secs)
- 7 hrs 53 mins (28,392 secs)
- 67 hrs 13 mins (242,002 secs)
- HMMER 3.1b1, no MPI
* - MGEScan2 with MPI
- 12 hrs 55 mins (46,550 secs)
- 2 hrs 36 mins (9,411 secs)
- 12 hrs 55 mins (46,550 secs)
- HMMER 3.1b1, MPI with 4 processors

D. pulex (GCA_000187875.1)
-------------------------------------------------------------------------------

* :download:`dpulex.gff3 <sample/dpulex.gff3.txt>`
* :download:`dpulex.ltr.out <sample/dpulex.ltr.out.txt>`
* :download:`dpulex.en <sample/dpulex.en.txt>`
* :download:`dpulex.rt <sample/dpulex.rt.txt>`

Evaluation
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^

.. list-table:: Elapsed time for MGEScan (dpulex)
:header-rows: 1

* - Program
- Total
- nonLTR
- LTR
- Options
* - MGEScan1.3.1
- 4 hrs 5mins (14,697 secs)
- 1hr 8mins (4,127 secs)
- 2 hrs 57 mins (10,570 secs)
- HMMER 2.3.2, no MPI
* - MGEScan2
- 4 hrs 5 mins (14,727 secs)
- 9 mins (503 secs)
- 4hrs 5 mins (14,727 secs)
- 2 hrs 36 mins (9,414 secs)
- 46 mins (2,780 secs)
- 2 hrs 36 mins (9,414 secs)
- HMMER 3.1b1, no MPI
* - MGEScan2 with MPI
- 1hr 22mins (4,897 secs)
- 3 mins (182 secs)
- 1 hr 22 mins (4,897 secs)
- 1hr 3mins (3,823 secs)
- 4 mins (222 secs)
- 1 hr 3mins (3,823 secs)
- HMMER 3.1b1, MPI with 4 processors


s. purpuratus MGEScan1.3.1 No MPI 45 hrs 12 mins 162,723 secs 6 hrs 34 mins 23,644 secs 38 hrs 37 mins 139,079 secs
MGEScan2 No MPI 67 hrs 13 mins 242,002 secs 7 hrs 53 mins 28,392 secs 67 hrs 13 mins 242,002 secs
MGEScan2 MPI (4 Proc) 12 hrs 55 mins 46,550 secs 2 hrs 36 mins 9,411 secs 12 hrs 55 mins 46,550 secs

55 changes: 55 additions & 0 deletions docs/source/sample/dpulex.en.txt
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@@ -0,0 +1,55 @@
tmp-------------------------------------
CR1_DAPPUscaffold_38.fa_237434_3 L2 7.3e-19 3.2e-05
tmp-------------------------------------
I_DAPPUscaffold_5.fa_296981_1 R1 2.9e-25 4.8e-11
I_DAPPUscaffold_82.fa_486542_1 I 6.8e-18 1.3e-07
I_DAPPUscaffold_148.fa_169571_2 I 3.8e-34 8.4e-10
I_DAPPUscaffold_224.fa_61211_2 I 1.1e-40 9.2e-27
I_DAPPUscaffold_147.fa_107972_1 I 1.8e-14 1.5e-08
I_DAPPUscaffold_1570.fa_902_2 Jockey 1.1e-33 4.8e-07
I_DAPPUscaffold_35.fa_589418_3 Jockey 6.5e-36 2.5e-12
I_DAPPUscaffold_14.fa_848864_2 I 6e-30 2.7e-13
I_DAPPUscaffold_1739.fa_3896_1 I 1.3e-52 2.0e-24
I_DAPPUscaffold_58.fa_263483_3 Jockey 6.3e-29 2.0e-14
I_DAPPUscaffold_50.fa_337514_2 Jockey 2.1e-13 3.3e-04
tmp-------------------------------------
Jockey_DAPPUscaffold_12.fa_2098079_3 Jockey 3.8e-14 1.4e-06
tmp-------------------------------------
L1_DAPPUscaffold_445.fa_8681_3 R1 9.1e-11 1.4e-09
L1_DAPPUscaffold_235.fa_95222_1 L1 2.6e-25 2.4e-17
L1_DAPPUscaffold_261.fa_59408_2 - 1000 1.0e+00
L1_DAPPUscaffold_125.fa_59417_3 L1 9.1e-42 2.9e-25
tmp-------------------------------------
L2_DAPPUscaffold_26.fa_174068_2 Rex 1.4e-19 2.4e-03
L2_DAPPUscaffold_52.fa_31508_2 L2 1.3e-34 5.4e-13
L2_DAPPUscaffold_71.fa_35999_1 RTE 6.8e-14 5.2e-01
L2_DAPPUscaffold_154.fa_243938_3 CR1 4.2e-35 1.5e-23
L2_DAPPUscaffold_22.fa_232118_3 L2 2.5e-41 2.9e-12
L2_DAPPUscaffold_89.fa_415991_1 L2 1.3e-51 4.3e-15
L2_DAPPUscaffold_659.fa_902_3 L1 1.4e-14 6.4e-04
L2_DAPPUscaffold_223.fa_50699_2 L1 1.1e-05 1.9e-01
L2_DAPPUscaffold_56.fa_64475_2 L2 9.7e-55 3.2e-19
L2_DAPPUscaffold_45.fa_251489_2 I 2.9e-11 8.1e-02
L2_DAPPUscaffold_69.fa_47852_2 L2 5.2e-51 1.6e-12
L2_DAPPUscaffold_169.fa_137906_1 L2 3.7e-49 7.6e-37
L2_DAPPUscaffold_124.fa_158_3 - 1000 1.0e+00
L2_DAPPUscaffold_114.fa_118172_1 RTE 8.9e-11 2.1e-02
L2_DAPPUscaffold_64.fa_532541_2 L2 2.2e-19 3.5e-03
L2_DAPPUscaffold_41.fa_170084_3 - 1000 1.0e+00
L2_DAPPUscaffold_124.fa_159443_3 L2 4.3e-12 1.9e-06
L2_DAPPUscaffold_92.fa_258782_2 L2 9.3e-23 1.3e-02
L2_DAPPUscaffold_253.fa_22868_2 - 1000 1.0e+00
tmp-------------------------------------
R1_DAPPUscaffold_234.fa_65183_2 R1 2.6e-11 1.6e-03
R1_DAPPUscaffold_119.fa_167333_3 R1 1.3e-12 1.3e-15
R1_DAPPUscaffold_727.fa_9686_1 I 1.5e-22 6.5e-13
R1_DAPPUscaffold_222.fa_45029_2 I 1.2e-11 1.3e-05
R1_DAPPUscaffold_382.fa_40274_3 R1 3.2e-24 1.3e-11
R1_DAPPUscaffold_235.fa_119864_1 R1 5.8e-27 1.8e-08
R1_DAPPUscaffold_37.fa_399590_1 - 1000 1.0e+00
R1_DAPPUscaffold_140.fa_192617_2 I 3.2e-11 4.3e-01
R1_DAPPUscaffold_82.fa_231275_2 R1 9.4e-16 4.9e-07
R1_DAPPUscaffold_109.fa_8648_1 Tad1 4.8e-07 4.8e-10
R1_DAPPUscaffold_203.fa_14666_1 Jockey 7.2e-13 7.2e-16
R1_DAPPUscaffold_114.fa_312032_1 R1 7.3e-20 7.3e-23
R1_DAPPUscaffold_66.fa_324623_1 R1 7.2e-33 2.1e-17

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