| The following checks are done, both for checked files as well as for the converted files: | List of checksThe following checks are done, both for checked files as well as for the converted files: | Check | Action/Correction |
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| Missing Field | If the SWC points matrix does not have seven columns, then return an error. All further checks are omitted. | | Number of Lines | - Generate an error if no samples are detected. All further checks are omitted. - If fewer than 20 lines, generate a warning to check file integrity. | | Number of soma Samples | Generate warning if no soma samples detected. | | Invalid Parent | If the Parent points to an Index value that does not exist, then make the sample with the invalid Parent a root point, and generate a warning to check file integrity. | | Index/Parent Integer | If Index and/or Parent are float-formatted integer (e.g., “1.00”), format them as integers. If they are non-integer values (e.g., “1.34”) or non-numerical entries (e.g, “abc”), generate an error. | | XYZ Double | Ensure X, Y, and Z coordinates are float/double values. Any NaN or NA values detected in the ASCII text file are treated as 0.0. Generate a warning to check file integrity, and add a footer to the file to note inserted values. | | Radius Positive Double | Ensure sample Radius is a double/float value. If radius is negative, zero, NaN, or NA, then set to 0.5. Generate a warning to check file integrity, and add a footer to the file to note inserted values. | | Non-Standard Type | If Type is float-formatted integer, format as integer. If it is non-integer value or non-numerical entry, change to Type 0 indicating "undefined". If bifurcation and terminal points have non-standard Types, set them to that of parent. | | Sequential Index | If the Index values are not in sequential order (starting from 1), then sort and reset Index and Parent numbering. | | Sorted Order | - If parent samples are referred to before being defined, then sort and reset Index and Parent numbering. - Sort indices to ensure that the first sample in the file is a root point. If no sample point is a root, generate an error. | | Soma Contours | Detect soma contour(s), and replace each with a single point. |
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