uno does not use CANDLE_DATA_DIR when --use_exported_data option is used

[brettin]

echo $CANDLE_DATA_DIR /homes/brettin/Singularity/workspace/data_dir ls $CANDLE_DATA_DIR uno_input_data.h5

ERROR MESSAGE (note that I ran uno from /homes/brettin/Singularity/workspace)

OSError: /homes/brettin/Singularity/workspace/uno_input_data.h5 does not exist

CANDLE_CONFIG

[Global_Params] train_sources=['CCLE', 'GDSC', 'CTRP', 'ALMANAC']

export_data='uno_input_data.h5'

use_exported_data='uno_input_data.h5' test_sources=['train'] cell_types=None cell_features=['rnaseq'] drug_features=['descriptors'] dense=[1000, 1000, 1000, 1000, 1000] dense_feature_layers=[1000, 1000, 1000] activation='relu' loss='mse' optimizer='adamax' scaling='std' dropout=.1 epochs=1 batch_size=32 val_split=0.2 cv=1 max_val_loss=1.0 learning_rate=0.0001 base_lr=None agg_dose='AUC' residual=False reduce_lr=True warmup_lr=True batch_normalization=False feature_subsample=0 rng_seed=2018 no_gen=False verbose=False

preprocess_rnaseq='source_scale' gpus=[0] use_landmark_genes=True no_feature_source=True no_response_source=True cp=True save_path='save/uno' output_dir='output/uno' single=True on_memory_loader=True

[Monitor_Params] timeout=-1

[jmohdyusof]

That path it is using does not match CANDLE_DATA_DIR ? (data_dir subdirectory is missing) Where in the code is the load error coming from? DataLoader has a ton of options

[jmohdyusof]

If this is locally exported data, why should it be using CANDLE_DATA_DIR? Should it be output_dir or something else?

[brettin]

tested and confirmed.