search

juliandewit / kaggle_ndsb2017

Kaggle datascience bowl 2017
MIT License
623 stars 290 forks source link

ValueError: need at least one array to concatenate #43

Closed sathyapatel closed 6 years ago

sathyapatel commented 6 years ago

I am getting this error when i ran STEP1B_PREPROCESS_MAKE_TRAIN_CUBES.PY Error has thrown for some luna16_manual_labels files. i don't understand what's happening in some specific CSV files. i have seen few .png images in luna16_train_cubes_manual folder.

ERROR SCREENSHOT Computer: DESKTOP-AVK4MS4 1.3.6.1.4.1.14519.5.2.1.6279.6001.128881800399702510818644205032 0 1.3.6.1.4.1.14519.5.2.1.6279.6001.128881800399702510818644205032 2 1.3.6.1.4.1.14519.5.2.1.6279.6001.160216916075817913953530562493 1 1.3.6.1.4.1.14519.5.2.1.6279.6001.160216916075817913953530562493 1 1.3.6.1.4.1.14519.5.2.1.6279.6001.161002239822118346732951898613 1.3.6.1.4.1.14519.5.2.1.6279.6001.167919147233131417984739058859 3 1.3.6.1.4.1.14519.5.2.1.6279.6001.167919147233131417984739058859 1 1.3.6.1.4.1.14519.5.2.1.6279.6001.170825539570536865106681134236 4 1.3.6.1.4.1.14519.5.2.1.6279.6001.170825539570536865106681134236 1 1.3.6.1.4.1.14519.5.2.1.6279.6001.172845185165807139298420209778 5 1.3.6.1.4.1.14519.5.2.1.6279.6001.172845185165807139298420209778 3 1.3.6.1.4.1.14519.5.2.1.6279.6001.173931884906244951746140865701 6 1.3.6.1.4.1.14519.5.2.1.6279.6001.173931884906244951746140865701 2 1.3.6.1.4.1.14519.5.2.1.6279.6001.227968442353440630355230778531 7 1.3.6.1.4.1.14519.5.2.1.6279.6001.227968442353440630355230778531 1 1.3.6.1.4.1.14519.5.2.1.6279.6001.230491296081537726468075344411 8 1.3.6.1.4.1.14519.5.2.1.6279.6001.230491296081537726468075344411 1 1.3.6.1.4.1.14519.5.2.1.6279.6001.241717018262666382493757419144 9 1.3.6.1.4.1.14519.5.2.1.6279.6001.241717018262666382493757419144 1 1.3.6.1.4.1.14519.5.2.1.6279.6001.246225645401227472829175288633 Traceback (most recent call last): File "step1b_preprocess_make_train_cubes.py", line 271, in make_pos_annotation_images_manual() File "step1b_preprocess_make_train_cubes.py", line 139, in make_pos_annotation_images_manual images = helpers.load_patient_images(patient_id, settings.LUNA16_EXTRACTED_IMAGE_DIR, "*" + CUBE_IMGTYPE_SRC + ".png") File "C:\Users\Sangryal\Downloads\sathya\helpers.py", line 78, in load_patient_images res = numpy.vstack(images) File "C:\Users\Sangryal\Anaconda3\lib\site-packages\numpy\core\shape_base.py", line 234, in vstack return _nx.concatenate([atleast_2d(_m) for _m in tup], 0) ValueError: need at least one array to concatenate

bundelesneha05 commented 6 years ago

I also facing same error ..while running the STEP1B_PREPROCESS_MAKE_TRAIN_CUBES.PY ...!!!!!!!!!!!

sathyapatel commented 6 years ago

1.3.6.1.4.1.14519.5.2.1.6279.6001.246225645401227472829175288633 1.3.6.1.4.1.14519.5.2.1.6279.6001.188265424231150847356515802868 1.3.6.1.4.1.14519.5.2.1.6279.6001.273525289046256012743471155680

these above 3 files from luna16_manual_labels created a problem ..i removed it and rest of the files are perfect to generate cube images

1.3.6.1.4.1.14519.5.2.1.6279.6001.161002239822118346732951898613 csv file..no data is present.. empty file..

@juliandewit could you please take a look here..what's happening in these above 3 files throwing an error.

juliandewit commented 6 years ago

Hello.. I'd say that they might be corrupt. Maybe you vcan re-download them or completely ignore them. 3 patients will not make a big difference.

Regards, Julian.

sathyapatel commented 6 years ago

Thanks for your reply !!!