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PeterJackNaylor / DRFNS

This repository contains the code necessary in order to reproduce the work contained in the submitted paper: "Segmentation of Nuclei in Histopathology Images by deep regression of the distance map".
MIT License
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Having toruble with query of "Running the pipeline with synthetic data" #10

Open haideralimughal opened 2 years ago

haideralimughal commented 2 years ago

nextflow run dummydataset.nf --epoch 10 -c nextflow.config -resume N E X T F L O W ~ version 21.04.3 Launching dummydataset.nf [drunk_curie] - revision: 2c82bdc18e executor > local (2) [d7/7078ce] process > DummyDataSet (1) [ 0%] 0 of 2 [- ] process > CreateTFRecords - [- ] process > Training - Error executing process > 'DummyDataSet (2)'

Caused by: Process DummyDataSet (2) terminated with an error exit status (1)

Command executed:

executor > local (2) [d7/7078ce] process > DummyDataSet (1) [100%] 2 of 2, failed: 2 ✘ [- ] process > CreateTFRecords - [- ] process > Training - Error executing process > 'DummyDataSet (2)'

Caused by: Process DummyDataSet (2) terminated with an error exit status (1)

Command executed:

python DDSCreation.py --path TNBC_NucleiSegmentation --output ./UNNormalized --test 10 --mu 127 --sigma 100 --sigma2 10 --normalized 1

Command exit status: 1

Command output: (empty)

Command error: Traceback (most recent call last): File "DDSCreation.py", line 5, in from Data.DataGenClass import DataGenMulti ImportError: No module named Data.DataGenClass

Work dir: /home/ali/DRFNS-master/work/d9/062563da64edd7ce062e7a7d3452f0

Tip: when you have fixed the problem you can continue the execution adding the option -resume to the run command line

PeterJackNaylor commented 2 years ago

Hi, It would seem that your PYTHONPATH is set incorrectly.