# Directory structure *StitchIt* expects certain data to be located in certain locations within the experiment root directory. These locations are defined in the [INI file](/installation/setting-up-the-ini-file.md). You shouldn't change these values unless you know what you're doing. `syncAndCrunch` honors the locations defined in the INI when it copies data from the acquisition server to the local device. The default data directories are: ``` EXP_ROOT_DIR/ Mosaic_Sample_I.txt rawData/ Sample_I-0001/ acquisition_log.txt COMPLETED sectionPreview.mat SL_1122247-0001_00001.tif SL_1122247-0001_00002.tif SL_1122247-0001_00003.tif [etc] tileIndex tilePositions.mat stitchitPreProcessingFiles tileStats_ch2.mat tileStats_ch3.mat tileStats_ch4.mat averages/ 1/ 2/ stitchedImages_100/ 1/ section_001_01.tif section_001_02.tif [etc] 2/ section_001_01.tif section_001_02.tif [etc] ``` The `stitchedImages_100` directory is created following stitching. The `averages` directory is created during processing. The main thing to get right is ensure there is a `rawData` directory and in this are the directories produced by the acquisition software. `syncAndCrunch` will do this. --- # Agent Instructions: Querying This Documentation If you need additional information that is not directly available in this page, you can query the documentation dynamically by asking a question. Perform an HTTP GET request on the current page URL with the `ask` query parameter: ``` GET https://stitchit.mouse.vision/new-users/the-experiment-directory-structure.md?ask= ``` The question should be specific, self-contained, and written in natural language. The response will contain a direct answer to the question and relevant excerpts and sources from the documentation. Use this mechanism when the answer is not explicitly present in the current page, you need clarification or additional context, or you want to retrieve related documentation sections.