Errors Glossary

Table of Contents

Errors in Test Files
Error List in Code

Note: All warnings and errors thrown in GRNsight should follow a three-part framework:

1. Explain what the problem is.
2. Explain why the problem exists.
3. How the user can approach solving the problem.

Errors in Test Files

All directories mentioned can be found in GRNsight/test-files.

Some files mentioned relatedness. Unrelated means that two genes are affected, and they do not have a positive or negative relationship with any other genes in the matrix. Related means that two genes are affected, and they do have a positive or negative relationship either with each other or other genes in the matrix.

*Side scroll in order to see the entire table.

Directory	File Name(s)	Error Code	Error Message	Notes
gene-name-modifications	duplicate-gene-side-and-top-input.xlsx AND duplicate-gene-side-and-top-output.xlsx	DUPLICATE_GENE	Your graph failed to load. There exists a duplicate for source gene ACE2. Please remove the duplicate gene and submit again. There exists a duplicate for target gene ACE2. Please remove the duplicate gene and submit again.
gene-name-modifications	duplicate-gene-side-input.xlsx AND duplicate-gene-side-output.xlsx	DUPLICATE_GENE	Your graph failed to load. There exists a duplicate for target gene ACE2. Please remove the duplicate gene and submit again.
gene-name-modifications	duplicate-gene-top-input.xlsx AND duplicate-gene-top-output.xlsx	DUPLICATE_GENE	Your graph failed to load. There exists a duplicate for source gene ACE2. Please remove the duplicate gene and submit again.
gene-name-modifications	long-gene-name-related-input.xlsx AND long-gene-name-related-output.xlsx AND long-gene-name-unrelated-input.xlsx AND long-gene-name-unrelated-output.xlsx	INVALID_GENE_LENGTH	Your graph failed to load. Gene ABF1QWERTYUIO is more than 12 characters in length. Genes may only be between 1 and 12 characters in length. Please shorten the name and submit again.
gene-name-modifications	mismatched-case-related-input.xlsx AND mismatched-case-related-output.xlsx AND mismatched-case-unrelated-input.xlsx AND mismatched-case-unrelated-output.xlsx		No errors.
gene-name-modifications	missing-gene-name-side-input.xlsx AND missing-gene-name-side-output.xlsx AND missing-gene-name-top-and-side-input.xlsx AND missing-gene-name-top-and-side-output.xlsx AND missing-gene-name-top-input.xlsx AND missing-gene-name-top-output.xlsx		No errors.
gene-name-modifications	all special character sheets		No errors.
graph-tests	asymmetrical-disordered-input.xlsx AND asymmetrical-more-source-genes.xlsx AND asymmetrical-more-target-genes.xlsx		No errors.
graph-tests	dCIN5GendronModel1.xlsx		No errors.	User created sheet that initially returned a corrupt gene error.
graph-tests>different-sized-networks	10-genes-0-edges.xlsx		No errors.	Test sheet that initially returned a missing data error.
graph-tests>different-sized-networks	80-genes-0-edges.xlsx AND 45-genes-max-edges.xlsx	INVALID_NETWORK_SIZE		Not yet implemented.
adjacency-matrix-modifications	asymmetric-gene-order-input.xlsx AND asymmetric-gene-order-output.xlsx		No errors.
adjacency-matrix-modifications	extra-data-random-cell-both-output.xlsx AND extra-data-random-cell-network-only-input.xlsx AND extra-data-random-cell-network-only-output.xlsx AND extra-data-random-cell-network-optimized-only-output.xlsx		No errors.
adjacency-matrix-modifications	missing-value-both-sheets-output.xlsx AND missing-value-network-only-input.xlsx AND missing-value-network-only-output.xlsx AND missing-value-network-optimized-only-output.xlsx		No errors.
adjacency-matrix-modifications	text-data-type-inside_related-both-output.xlsx AND text-data-type-inside_related-net-only-input.xlsx AND text-data-type-inside_related-net-only-output.xlsx AND text-data-type-inside-related-net-op-only-output.xlsx		No errors.
adjacency-matrix-modifications	text-data-type-inside-unrelated-both-output.xlsx AND text-data-type-inside-unrelated-net-only-input.xlsx AND text-data-type-inside-unrelated-net-only-output.xlsx AND text-data-type-inside-unrelated-net-op-only-output.xlsx		No errors.
adjacency-matrix-modifications	text-data-type-outside-both-output.xlsx AND text-data-type-outside-net-only-input.xlsx AND text-data-type-outside-net-only-output.xlsx AND text-data-type-outside-net-op-only-output.xlsx		No errors.
adjacency-matrix-modifications	value-replaced-w-spaces-both-output.xlsx AND value-replaced-w-spaces-net-op-only-output.xlsx AND value-replaced–w-spaces-net-only-input.xlsx AND value-replaced–w-spaces-net-only-output.xlsx		No errors.
adjacency-matrix-modifications	empty-column-input.xlsx AND empty-column-output.xlsx AND empty-row-input.xlsx AND empty-row-output.xlsx		No errors.
sheet-modifications	extra-sheet-input.xlsx AND extra-sheet-output.xlsx		No errors.
sheet-modifications	missing-sheet-input.xlsx	MISSING_NETWORK	Your graph failed to load. This file does not have a 'network' sheet or a 'network_optimized_weights' sheet. Please select another file, or rename the sheet containing the adjacency matrix accordingly. Please refer to the Documentation page for more information.
sheet-modifications	missing-sheet-output.xlsx		No errors.
sheet-modifications	sheet-names-switched-output.xlsx		No errors.
sheet-modifications	wrong-sheet-name-input.xlsx		No errors.
sheet-modifications	wrong-sheet-name-output.xlsx	MISSING_NETWORK	Your graph failed to load. This file does not have a 'network' sheet or a 'network_optimized_weights' sheet. Please select another file, or rename the sheet containing the adjacency matrix accordingly. Please refer to the Documentation page for more information.
data-samples	all files in this folder			These are all files generated with lab data for use with GRNmap and are used as examples for GRNsight.
demo-files	all files in this folder			All 4 of these files act as demos on GRNsight.

Error List in Code

The error list in the code can be viewed here.