The invention relates to a full-automatic sample comprehensive pretreatment instrument which comprises a sampling module, a cleaning module, a treatment module, a sample placing module, a collecting module, a column temperature control module, an extraction sample injection module and an operation control module. On-line/off-line matrix elimination, purification, extraction, enrichment, desorptionand separation functions of samples can be selected and used through switching of a control circuit and a valve; all the functions can be independently used online/offline and can also be randomly combined for use according to requirements, and the sample with a complex matrix can be converted into a target sample; the instrument reduces or removes interferents, concentrates and enriches to-be-detected components, reduces the influence of complex samples on analysis results, further meets the requirements of chromatographic separation analysis of target objects, improves the response value ofinstrument detection, avoids errors caused by manual pretreatment, and ensures the reproducibility and accuracy of instrument testing. The instrument is suitable for the fields of medicine and health, environmental protection, food detection, scientific research and industrial wastewater detection.