m5imunovic curly-octo-train issues

m5imunovic / curly-octo-train

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Create sampling scripts for HG002

#193 m5imunovic opened 2 days ago
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Unify common HG002 and CHM13 code

#192 m5imunovic opened 2 days ago
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Add HG002 reference

#191 m5imunovic closed 2 days ago
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Add HG0002 reference

#190 m5imunovic closed 2 days ago
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Add bed file parser

#189 m5imunovic opened 6 days ago
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Cpp graph exporter

#187 m5imunovic opened 1 month ago
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Keep graph from jumbo for test samples

#186 m5imunovic closed 2 months ago
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Keep graph for test samples

#185 m5imunovic closed 2 months ago
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Replace rolling hash with sha1 for speed

#184 m5imunovic closed 2 months ago
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Update LJA after bugfix

#183 m5imunovic closed 2 months ago
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Update LJA after bugfix

#182 m5imunovic closed 2 months ago
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Add sampling scripts

#181 m5imunovic closed 2 months ago
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Add missing sampling scripts

#180 m5imunovic closed 2 months ago
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Update to new LJA interface

#179 m5imunovic closed 2 months ago
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Adopt newest LJA interface

#178 m5imunovic closed 2 months ago
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Add documentation for sampling process preparation

#177 m5imunovic closed 3 months ago
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Update LJA to latest commit

#176 m5imunovic closed 3 months ago
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Update LJA to latest commit

#175 m5imunovic closed 3 months ago
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Add pytest-xdist to speed up testing

#174 m5imunovic closed 3 months ago
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Add tracking summary as metadata

#173 m5imunovic closed 3 months ago
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Add pytest-xdist to speed up testing

#172 m5imunovic closed 3 months ago
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Benchmark LJA hashing algo speed against sha-256

#171 m5imunovic closed 2 months ago
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Re-establish verification with new LJA Interface

#170 m5imunovic closed 3 months ago
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Document mapping of the CHM13 reads

#169 m5imunovic closed 3 months ago
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Fix wrong handler inits and clean hydra logging

#168 m5imunovic closed 3 months ago
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Add exception handling to eval loop

#167 m5imunovic closed 3 months ago
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Feature/161 collect eval results

#166 m5imunovic closed 3 months ago
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Verify that eval works with new LJA interface

#165 m5imunovic closed 3 months ago
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Add H002 dataset

#164 m5imunovic opened 3 months ago
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Add evaluation script

#163 m5imunovic closed 3 months ago
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Add more tracking information to the dataset

#162 m5imunovic closed 3 months ago
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Create script for collecting eval results in the table

#161 m5imunovic closed 3 months ago
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Eval should catch errors from subprocess and continue on fail

#160 m5imunovic closed 3 months ago
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Feature/155 use lja threads from config

#159 m5imunovic closed 3 months ago
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Unify logging over entire project

#158 m5imunovic opened 3 months ago
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Add reads sampler

#157 m5imunovic closed 3 months ago
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Create sampling based read simulator

#156 m5imunovic closed 3 months ago
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Use threads from LJA config instead of configuring from schedule

#155 m5imunovic closed 3 months ago
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Finalize adoptation of the new interface

#154 m5imunovic closed 4 months ago
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Verify new LJA interface

#153 m5imunovic closed 4 months ago
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Update LJA interface

#152 m5imunovic closed 4 months ago
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Adapt to new LJA interface

#151 m5imunovic closed 4 months ago
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Fix exception when using experimental fs copy

#150 m5imunovic closed 4 months ago
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Fix LJA filesystem errors

#149 m5imunovic closed 4 months ago
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Add option to keep files for test subset validation

#148 m5imunovic closed 4 months ago
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Restore evaluation functionality for LJA

#147 m5imunovic closed 4 months ago
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Restore evaluation functionality

#146 m5imunovic closed 4 months ago
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Add vendor installation script

#145 m5imunovic closed 4 months ago
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Add vendor installation script

#144 m5imunovic closed 4 months ago
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Add logging to wandb with profile and logs and cleanup

#143 m5imunovic closed 4 months ago
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