<?xml version="1.0" encoding="US-ASCII"?>
<!--XBRL Document Created with WebFilings-->
<linkbase xsi:schemaLocation="http://www.xbrl.org/2003/linkbase http://www.xbrl.org/2003/xbrl-linkbase-2003-12-31.xsd" xmlns="http://www.xbrl.org/2003/linkbase" xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/BasisOfPresentation" xlink:href="wfm-20120408.xsd#BasisOfPresentation" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/BasisOfPresentationDetails" xlink:href="wfm-20120408.xsd#BasisOfPresentationDetails" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/BasisOfPresentationDetails2" xlink:href="wfm-20120408.xsd#BasisOfPresentationDetails2" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/BasisOfPresentationDetails3" xlink:href="wfm-20120408.xsd#BasisOfPresentationDetails3" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/BasisOfPresentationTables" xlink:href="wfm-20120408.xsd#BasisOfPresentationTables" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/CommitmentsAndContingencies" xlink:href="wfm-20120408.xsd#CommitmentsAndContingencies" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ConsolidatedBalanceSheets" xlink:href="wfm-20120408.xsd#ConsolidatedBalanceSheets" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ConsolidatedBalanceSheetsParenthetical" xlink:href="wfm-20120408.xsd#ConsolidatedBalanceSheetsParenthetical" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ConsolidatedStatementsOfCashFlows" xlink:href="wfm-20120408.xsd#ConsolidatedStatementsOfCashFlows" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ConsolidatedStatementsOfOperations" xlink:href="wfm-20120408.xsd#ConsolidatedStatementsOfOperations" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ConsolidatedStatementsOfShareholdersEquityAndComprehensiveIncome" xlink:href="wfm-20120408.xsd#ConsolidatedStatementsOfShareholdersEquityAndComprehensiveIncome" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ConsolidatedStatementsOfShareholdersEquityAndComprehensiveIncomeParenthetical" xlink:href="wfm-20120408.xsd#ConsolidatedStatementsOfShareholdersEquityAndComprehensiveIncomeParenthetical" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/DocumentAndEntityInformation" xlink:href="wfm-20120408.xsd#DocumentAndEntityInformation" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/EarningsPerShare" xlink:href="wfm-20120408.xsd#EarningsPerShare" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/EarningsPerShareDetails" xlink:href="wfm-20120408.xsd#EarningsPerShareDetails" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/EarningsPerShareTables" xlink:href="wfm-20120408.xsd#EarningsPerShareTables" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/FairValueMeasurements" xlink:href="wfm-20120408.xsd#FairValueMeasurements" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/FairValueMeasurements2Details" xlink:href="wfm-20120408.xsd#FairValueMeasurements2Details" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/FairValueMeasurementsDetails" xlink:href="wfm-20120408.xsd#FairValueMeasurementsDetails" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/FairValueMeasurementsTables" xlink:href="wfm-20120408.xsd#FairValueMeasurementsTables" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/IncomeTaxes" xlink:href="wfm-20120408.xsd#IncomeTaxes" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/IncomeTaxesDetails" xlink:href="wfm-20120408.xsd#IncomeTaxesDetails" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/IntangibleAssets" xlink:href="wfm-20120408.xsd#IntangibleAssets" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/IntangibleAssetsDetails" xlink:href="wfm-20120408.xsd#IntangibleAssetsDetails" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/IntangibleAssetsDetails2" xlink:href="wfm-20120408.xsd#IntangibleAssetsDetails2" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/IntangibleAssetsTables" xlink:href="wfm-20120408.xsd#IntangibleAssetsTables" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/InvestmentsDetails" xlink:href="wfm-20120408.xsd#InvestmentsDetails" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/InvestmentsDetails2" xlink:href="wfm-20120408.xsd#InvestmentsDetails2" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/InvestmentsDetails2Calc2" xlink:href="wfm-20120408.xsd#InvestmentsDetails2Calc2" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/InvestmentsNotes" xlink:href="wfm-20120408.xsd#InvestmentsNotes" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/InvestmentsTables" xlink:href="wfm-20120408.xsd#InvestmentsTables" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/LongTermDebt" xlink:href="wfm-20120408.xsd#LongTermDebt" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/LongTermDebtDetails" xlink:href="wfm-20120408.xsd#LongTermDebtDetails" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/RecentAccountingPronouncements" xlink:href="wfm-20120408.xsd#RecentAccountingPronouncements" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/RelatedPartyTransactions" xlink:href="wfm-20120408.xsd#RelatedPartyTransactions" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/RelatedPartyTransactionsDetails" xlink:href="wfm-20120408.xsd#RelatedPartyTransactionsDetails" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ReservesForClosedProperties" xlink:href="wfm-20120408.xsd#ReservesForClosedProperties" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ReservesForClosedPropertiesDetails" xlink:href="wfm-20120408.xsd#ReservesForClosedPropertiesDetails" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ReservesForClosedPropertiesTables" xlink:href="wfm-20120408.xsd#ReservesForClosedPropertiesTables" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ShareBasedPayments" xlink:href="wfm-20120408.xsd#ShareBasedPayments" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ShareBasedPaymentsDetails" xlink:href="wfm-20120408.xsd#ShareBasedPaymentsDetails" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ShareBasedPaymentsDetails2" xlink:href="wfm-20120408.xsd#ShareBasedPaymentsDetails2" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ShareBasedPaymentsTables" xlink:href="wfm-20120408.xsd#ShareBasedPaymentsTables" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ShareholdersEquity" xlink:href="wfm-20120408.xsd#ShareholdersEquity" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ShareholdersEquityDetails" xlink:href="wfm-20120408.xsd#ShareholdersEquityDetails" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ShareholdersEquityDetails2" xlink:href="wfm-20120408.xsd#ShareholdersEquityDetails2" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/ShareholdersEquityTables" xlink:href="wfm-20120408.xsd#ShareholdersEquityTables" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/SummaryOfSignificantAccountingPolicies" xlink:href="wfm-20120408.xsd#SummaryOfSignificantAccountingPolicies" xlink:type="simple" />
  <roleRef roleURI="http://www.wholefoodsmarket.com/role/SummaryOfSignificantAccountingPoliciesPolicies" xlink:href="wfm-20120408.xsd#SummaryOfSignificantAccountingPoliciesPolicies" xlink:type="simple" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/BasisOfPresentation" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/BasisOfPresentationDetails" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/BasisOfPresentationDetails2" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/BasisOfPresentationDetails3" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/BasisOfPresentationTables" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/CommitmentsAndContingencies" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ConsolidatedBalanceSheets" xlink:type="extended">
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_Assets" xlink:label="loc_us-gaap_Assets_fa7db8f6-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AssetsCurrent" xlink:label="loc_us-gaap_AssetsCurrent_f8ae30dc-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_Assets_fa7db8f6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AssetsCurrent_f8ae30dc-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_CashAndCashEquivalentsAtCarryingValue" xlink:label="loc_us-gaap_CashAndCashEquivalentsAtCarryingValue_e5378c74-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AssetsCurrent_f8ae30dc-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_CashAndCashEquivalentsAtCarryingValue_e5378c74-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AvailableForSaleSecuritiesCurrent" xlink:label="loc_us-gaap_AvailableForSaleSecuritiesCurrent_f01cf5f2-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AssetsCurrent_f8ae30dc-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AvailableForSaleSecuritiesCurrent_f01cf5f2-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_RestrictedCashAndCashEquivalentsAtCarryingValue" xlink:label="loc_us-gaap_RestrictedCashAndCashEquivalentsAtCarryingValue_f5cca8ee-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="3" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AssetsCurrent_f8ae30dc-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_RestrictedCashAndCashEquivalentsAtCarryingValue_f5cca8ee-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_ReceivablesNetCurrent" xlink:label="loc_us-gaap_ReceivablesNetCurrent_f4e258de-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AssetsCurrent_f8ae30dc-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_ReceivablesNetCurrent_f4e258de-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_InventoryNet" xlink:label="loc_us-gaap_InventoryNet_ee7eb460-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="5" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AssetsCurrent_f8ae30dc-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_InventoryNet_ee7eb460-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_PrepaidExpenseAndOtherAssetsCurrent" xlink:label="loc_us-gaap_PrepaidExpenseAndOtherAssetsCurrent_089fff02-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="6" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AssetsCurrent_f8ae30dc-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_PrepaidExpenseAndOtherAssetsCurrent_089fff02-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_DeferredTaxAssetsLiabilitiesNetCurrent" xlink:label="loc_us-gaap_DeferredTaxAssetsLiabilitiesNetCurrent_e7937050-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="7" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AssetsCurrent_f8ae30dc-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_DeferredTaxAssetsLiabilitiesNetCurrent_e7937050-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_PropertyPlantAndEquipmentNet" xlink:label="loc_us-gaap_PropertyPlantAndEquipmentNet_f43e00ea-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_Assets_fa7db8f6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_PropertyPlantAndEquipmentNet_f43e00ea-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AvailableForSaleSecuritiesNoncurrent" xlink:label="loc_us-gaap_AvailableForSaleSecuritiesNoncurrent_f01a87ae-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="3" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_Assets_fa7db8f6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AvailableForSaleSecuritiesNoncurrent_f01a87ae-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_Goodwill" xlink:label="loc_us-gaap_Goodwill_edd3f2e6-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_Assets_fa7db8f6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_Goodwill_edd3f2e6-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IntangibleAssetsNetExcludingGoodwill" xlink:label="loc_us-gaap_IntangibleAssetsNetExcludingGoodwill_edcf1a64-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="5" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_Assets_fa7db8f6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IntangibleAssetsNetExcludingGoodwill_edcf1a64-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_DeferredTaxAssetsLiabilitiesNetNoncurrent" xlink:label="loc_us-gaap_DeferredTaxAssetsLiabilitiesNetNoncurrent_e79e0d26-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="6" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_Assets_fa7db8f6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_DeferredTaxAssetsLiabilitiesNetNoncurrent_e79e0d26-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_OtherAssetsNoncurrent" xlink:label="loc_us-gaap_OtherAssetsNoncurrent_ff39e37e-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="7" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_Assets_fa7db8f6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_OtherAssetsNoncurrent_ff39e37e-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_LiabilitiesAndStockholdersEquity" xlink:label="loc_us-gaap_LiabilitiesAndStockholdersEquity_eed459d8-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_Liabilities" xlink:label="loc_us-gaap_Liabilities_eec8615a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_LiabilitiesAndStockholdersEquity_eed459d8-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_Liabilities_eec8615a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_LiabilitiesCurrent" xlink:label="loc_us-gaap_LiabilitiesCurrent_e70775a0-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_Liabilities_eec8615a-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_LiabilitiesCurrent_e70775a0-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_CapitalLeaseObligationsCurrent" xlink:label="loc_us-gaap_CapitalLeaseObligationsCurrent_e50b4a1a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_LiabilitiesCurrent_e70775a0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_CapitalLeaseObligationsCurrent_e50b4a1a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AccountsPayableCurrent" xlink:label="loc_us-gaap_AccountsPayableCurrent_07c49f2a-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_LiabilitiesCurrent_e70775a0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AccountsPayableCurrent_07c49f2a-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_EmployeeRelatedLiabilitiesCurrent" xlink:label="loc_us-gaap_EmployeeRelatedLiabilitiesCurrent_080122b0-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="3" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_LiabilitiesCurrent_e70775a0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_EmployeeRelatedLiabilitiesCurrent_080122b0-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_DividendsPayableCurrent" xlink:label="loc_us-gaap_DividendsPayableCurrent_07fd5be4-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_LiabilitiesCurrent_e70775a0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_DividendsPayableCurrent_07fd5be4-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_OtherLiabilitiesCurrent" xlink:label="loc_us-gaap_OtherLiabilitiesCurrent_faeb4bdc-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="5" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_LiabilitiesCurrent_e70775a0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_OtherLiabilitiesCurrent_faeb4bdc-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_CapitalLeaseObligationsNoncurrent" xlink:label="loc_us-gaap_CapitalLeaseObligationsNoncurrent_e50bae1a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_Liabilities_eec8615a-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_CapitalLeaseObligationsNoncurrent_e50bae1a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="wfm-20120408.xsd#wfm_DeferredLeaseLiabilities" xlink:label="loc_wfm_DeferredLeaseLiabilities_c8595dec-2153-11e1-a46b-1231380b3199" xlink:type="locator" />
    <calculationArc order="3" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_Liabilities_eec8615a-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_wfm_DeferredLeaseLiabilities_c8595dec-2153-11e1-a46b-1231380b3199" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_OtherLiabilitiesNoncurrent" xlink:label="loc_us-gaap_OtherLiabilitiesNoncurrent_faebbfcc-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_Liabilities_eec8615a-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_OtherLiabilitiesNoncurrent_faebbfcc-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_CommonStockIncludingAdditionalPaidInCapital" xlink:label="loc_us-gaap_CommonStockIncludingAdditionalPaidInCapital_fd0c2828-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_LiabilitiesAndStockholdersEquity_eed459d8-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_CommonStockIncludingAdditionalPaidInCapital_fd0c2828-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_TreasuryStockValue" xlink:label="loc_us-gaap_TreasuryStockValue_fdef0d3c-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="3" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_LiabilitiesAndStockholdersEquity_eed459d8-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_TreasuryStockValue_fdef0d3c-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AccumulatedOtherComprehensiveIncomeLossNetOfTax" xlink:label="loc_us-gaap_AccumulatedOtherComprehensiveIncomeLossNetOfTax_e2cdfc7a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_LiabilitiesAndStockholdersEquity_eed459d8-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AccumulatedOtherComprehensiveIncomeLossNetOfTax_e2cdfc7a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_RetainedEarningsAccumulatedDeficit" xlink:label="loc_us-gaap_RetainedEarningsAccumulatedDeficit_f62c5e7e-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="5" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_LiabilitiesAndStockholdersEquity_eed459d8-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_RetainedEarningsAccumulatedDeficit_f62c5e7e-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_StockholdersEquity" xlink:label="loc_us-gaap_StockholdersEquity_00bf81f4-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_StockholdersEquity_00bf81f4-2586-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_CommonStockIncludingAdditionalPaidInCapital_fd0c2828-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <calculationArc order="2" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_StockholdersEquity_00bf81f4-2586-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_TreasuryStockValue_fdef0d3c-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <calculationArc order="3" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_StockholdersEquity_00bf81f4-2586-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AccumulatedOtherComprehensiveIncomeLossNetOfTax_e2cdfc7a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_StockholdersEquity_00bf81f4-2586-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_RetainedEarningsAccumulatedDeficit_f62c5e7e-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
  </calculationLink>
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ConsolidatedBalanceSheetsParenthetical" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ConsolidatedStatementsOfCashFlows" xlink:type="extended">
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_NetCashProvidedByUsedInContinuingOperations" xlink:label="loc_us-gaap_NetCashProvidedByUsedInContinuingOperations_0a513cc6-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations" xlink:label="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInContinuingOperations_0a513cc6-2586-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_NetIncomeLoss" xlink:label="loc_us-gaap_NetIncomeLoss_f0af6c2a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_NetIncomeLoss_f0af6c2a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_DepreciationDepletionAndAmortization" xlink:label="loc_us-gaap_DepreciationDepletionAndAmortization_05f0f9dc-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_DepreciationDepletionAndAmortization_05f0f9dc-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_GainLossOnSaleOfPropertyPlantEquipment" xlink:label="loc_us-gaap_GainLossOnSaleOfPropertyPlantEquipment_ec5e7e4a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="3" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_GainLossOnSaleOfPropertyPlantEquipment_ec5e7e4a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_ShareBasedCompensation" xlink:label="loc_us-gaap_ShareBasedCompensation_eaf41c9a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_ShareBasedCompensation_eaf41c9a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_InventoryLIFOReservePeriodCharge" xlink:label="loc_us-gaap_InventoryLIFOReservePeriodCharge_08a1bc20-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="5" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_InventoryLIFOReservePeriodCharge_08a1bc20-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_DeferredIncomeTaxExpenseBenefit" xlink:label="loc_us-gaap_DeferredIncomeTaxExpenseBenefit_e77bd6fc-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="6" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_DeferredIncomeTaxExpenseBenefit_e77bd6fc-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_ExcessTaxBenefitFromShareBasedCompensationOperatingActivities" xlink:label="loc_us-gaap_ExcessTaxBenefitFromShareBasedCompensationOperatingActivities_feb636d2-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="7" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_ExcessTaxBenefitFromShareBasedCompensationOperatingActivities_feb636d2-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="wfm-20120408.xsd#wfm_IncreaseDecreaseInDeferredLeaseLiabilities" xlink:label="loc_wfm_IncreaseDecreaseInDeferredLeaseLiabilities_cb1fe67c-2153-11e1-a46b-1231380b3199" xlink:type="locator" />
    <calculationArc order="8" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_wfm_IncreaseDecreaseInDeferredLeaseLiabilities_cb1fe67c-2153-11e1-a46b-1231380b3199" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_OtherNoncashIncomeExpense" xlink:label="loc_us-gaap_OtherNoncashIncomeExpense_0d51972c-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="9" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_OtherNoncashIncomeExpense_0d51972c-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IncreaseDecreaseInReceivables" xlink:label="loc_us-gaap_IncreaseDecreaseInReceivables_e5ce4ac4-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="10" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IncreaseDecreaseInReceivables_e5ce4ac4-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IncreaseDecreaseInRetailRelatedInventories" xlink:label="loc_us-gaap_IncreaseDecreaseInRetailRelatedInventories_024f9fea-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="11" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IncreaseDecreaseInRetailRelatedInventories_024f9fea-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IncreaseDecreaseInPrepaidDeferredExpenseAndOtherAssets" xlink:label="loc_us-gaap_IncreaseDecreaseInPrepaidDeferredExpenseAndOtherAssets_e5c99b5a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="12" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IncreaseDecreaseInPrepaidDeferredExpenseAndOtherAssets_e5c99b5a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IncreaseDecreaseInAccountsPayable" xlink:label="loc_us-gaap_IncreaseDecreaseInAccountsPayable_e5df5b16-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="13" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IncreaseDecreaseInAccountsPayable_e5df5b16-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IncreaseDecreaseInEmployeeRelatedLiabilities" xlink:label="loc_us-gaap_IncreaseDecreaseInEmployeeRelatedLiabilities_e5ac2e76-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="14" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IncreaseDecreaseInEmployeeRelatedLiabilities_e5ac2e76-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IncreaseDecreaseInOtherAccruedLiabilities" xlink:label="loc_us-gaap_IncreaseDecreaseInOtherAccruedLiabilities_e5c1e6b2-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="15" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IncreaseDecreaseInOtherAccruedLiabilities_e5c1e6b2-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IncreaseDecreaseInOtherOperatingLiabilities" xlink:label="loc_us-gaap_IncreaseDecreaseInOtherOperatingLiabilities_ff60b206-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="16" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations_f082c1f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IncreaseDecreaseInOtherOperatingLiabilities_ff60b206-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_NetCashProvidedByUsedInInvestingActivitiesContinuingOperations" xlink:label="loc_us-gaap_NetCashProvidedByUsedInInvestingActivitiesContinuingOperations_fda198c2-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInContinuingOperations_0a513cc6-2586-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_NetCashProvidedByUsedInInvestingActivitiesContinuingOperations_fda198c2-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="wfm-20120408.xsd#wfm_DevelopmentCostsOfNewLocations" xlink:label="loc_wfm_DevelopmentCostsOfNewLocations_ca986fa8-2153-11e1-a46b-1231380b3199" xlink:type="locator" />
    <calculationArc order="1" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInInvestingActivitiesContinuingOperations_fda198c2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_wfm_DevelopmentCostsOfNewLocations_ca986fa8-2153-11e1-a46b-1231380b3199" xlink:type="arc" />
    <loc xlink:href="wfm-20120408.xsd#wfm_OtherPropertyAndEquipmentExpenditures" xlink:label="loc_wfm_OtherPropertyAndEquipmentExpenditures_ca9421fa-2153-11e1-a46b-1231380b3199" xlink:type="locator" />
    <calculationArc order="2" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInInvestingActivitiesContinuingOperations_fda198c2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_wfm_OtherPropertyAndEquipmentExpenditures_ca9421fa-2153-11e1-a46b-1231380b3199" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_PaymentsToAcquireAvailableForSaleSecurities" xlink:label="loc_us-gaap_PaymentsToAcquireAvailableForSaleSecurities_f4846ddc-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="3" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInInvestingActivitiesContinuingOperations_fda198c2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_PaymentsToAcquireAvailableForSaleSecurities_f4846ddc-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_ProceedsFromSaleAndMaturityOfAvailableForSaleSecurities" xlink:label="loc_us-gaap_ProceedsFromSaleAndMaturityOfAvailableForSaleSecurities_f3b04ad4-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInInvestingActivitiesContinuingOperations_fda198c2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_ProceedsFromSaleAndMaturityOfAvailableForSaleSecurities_f3b04ad4-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IncreaseDecreaseInRestrictedCash" xlink:label="loc_us-gaap_IncreaseDecreaseInRestrictedCash_eda673d4-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="5" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInInvestingActivitiesContinuingOperations_fda198c2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IncreaseDecreaseInRestrictedCash_eda673d4-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_PaymentsForProceedsFromOtherInvestingActivities" xlink:label="loc_us-gaap_PaymentsForProceedsFromOtherInvestingActivities_f2038c46-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="6" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInInvestingActivitiesContinuingOperations_fda198c2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_PaymentsForProceedsFromOtherInvestingActivities_f2038c46-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_NetCashProvidedByUsedInFinancingActivitiesContinuingOperations" xlink:label="loc_us-gaap_NetCashProvidedByUsedInFinancingActivitiesContinuingOperations_fda1faa6-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="3" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInContinuingOperations_0a513cc6-2586-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_NetCashProvidedByUsedInFinancingActivitiesContinuingOperations_fda1faa6-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_PaymentsOfDividendsCommonStock" xlink:label="loc_us-gaap_PaymentsOfDividendsCommonStock_f281d326-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInFinancingActivitiesContinuingOperations_fda1faa6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_PaymentsOfDividendsCommonStock_f281d326-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_ProceedsFromIssuanceOfCommonStock" xlink:label="loc_us-gaap_ProceedsFromIssuanceOfCommonStock_f3de7e68-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInFinancingActivitiesContinuingOperations_fda1faa6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_ProceedsFromIssuanceOfCommonStock_f3de7e68-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_PaymentsForRepurchaseOfCommonStock" xlink:label="loc_us-gaap_PaymentsForRepurchaseOfCommonStock_f5a72484-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="3" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInFinancingActivitiesContinuingOperations_fda1faa6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_PaymentsForRepurchaseOfCommonStock_f5a72484-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_ExcessTaxBenefitFromShareBasedCompensationFinancingActivities" xlink:label="loc_us-gaap_ExcessTaxBenefitFromShareBasedCompensationFinancingActivities_f88c5ffc-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInFinancingActivitiesContinuingOperations_fda1faa6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_ExcessTaxBenefitFromShareBasedCompensationFinancingActivities_f88c5ffc-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_RepaymentsOfLongTermDebtAndCapitalSecurities" xlink:label="loc_us-gaap_RepaymentsOfLongTermDebtAndCapitalSecurities_f5706412-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="5" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInFinancingActivitiesContinuingOperations_fda1faa6-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_RepaymentsOfLongTermDebtAndCapitalSecurities_f5706412-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_EffectOfExchangeRateOnCashAndCashEquivalentsContinuingOperations" xlink:label="loc_us-gaap_EffectOfExchangeRateOnCashAndCashEquivalentsContinuingOperations_ea1065d6-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetCashProvidedByUsedInContinuingOperations_0a513cc6-2586-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_EffectOfExchangeRateOnCashAndCashEquivalentsContinuingOperations_ea1065d6-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
  </calculationLink>
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ConsolidatedStatementsOfOperations" xlink:type="extended">
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_NetIncomeLoss" xlink:label="loc_us-gaap_NetIncomeLoss_f0af6c2a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IncomeLossFromContinuingOperationsBeforeIncomeTaxesMinorityInterestAndIncomeLossFromEquityMethodInvestments" xlink:label="loc_us-gaap_IncomeLossFromContinuingOperationsBeforeIncomeTaxesMinorityInterestAndIncomeLossFromEquityMethodInvestments_ffc350a0-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetIncomeLoss_f0af6c2a-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IncomeLossFromContinuingOperationsBeforeIncomeTaxesMinorityInterestAndIncomeLossFromEquityMethodInvestments_ffc350a0-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_OperatingIncomeLoss" xlink:label="loc_us-gaap_OperatingIncomeLoss_f1959cb8-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_IncomeLossFromContinuingOperationsBeforeIncomeTaxesMinorityInterestAndIncomeLossFromEquityMethodInvestments_ffc350a0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_OperatingIncomeLoss_f1959cb8-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_GrossProfit" xlink:label="loc_us-gaap_GrossProfit_ec7be2aa-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_OperatingIncomeLoss_f1959cb8-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_GrossProfit_ec7be2aa-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_SalesRevenueNet" xlink:label="loc_us-gaap_SalesRevenueNet_f679139a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_GrossProfit_ec7be2aa-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_SalesRevenueNet_f679139a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="wfm-20120408.xsd#wfm_CostOfGoodsSoldAndOccupancyCosts" xlink:label="loc_wfm_CostOfGoodsSoldAndOccupancyCosts_cb252a06-2153-11e1-a46b-1231380b3199" xlink:type="locator" />
    <calculationArc order="2" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_GrossProfit_ec7be2aa-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_wfm_CostOfGoodsSoldAndOccupancyCosts_cb252a06-2153-11e1-a46b-1231380b3199" xlink:type="arc" />
    <loc xlink:href="wfm-20120408.xsd#wfm_DirectStoreExpenses" xlink:label="loc_wfm_DirectStoreExpenses_cab930c6-2153-11e1-a46b-1231380b3199" xlink:type="locator" />
    <calculationArc order="2" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_OperatingIncomeLoss_f1959cb8-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_wfm_DirectStoreExpenses_cab930c6-2153-11e1-a46b-1231380b3199" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_GeneralAndAdministrativeExpense" xlink:label="loc_us-gaap_GeneralAndAdministrativeExpense_ec692278-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="3" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_OperatingIncomeLoss_f1959cb8-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_GeneralAndAdministrativeExpense_ec692278-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_PreOpeningCosts" xlink:label="loc_us-gaap_PreOpeningCosts_f3259006-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="4" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_OperatingIncomeLoss_f1959cb8-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_PreOpeningCosts_f3259006-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="wfm-20120408.xsd#wfm_RelocationStoreClosureAndLeaseTerminationCosts" xlink:label="loc_wfm_RelocationStoreClosureAndLeaseTerminationCosts_cb1b855a-2153-11e1-a46b-1231380b3199" xlink:type="locator" />
    <calculationArc order="5" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_OperatingIncomeLoss_f1959cb8-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_wfm_RelocationStoreClosureAndLeaseTerminationCosts_cb1b855a-2153-11e1-a46b-1231380b3199" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_OtherNonoperatingIncomeExpense" xlink:label="loc_us-gaap_OtherNonoperatingIncomeExpense_f216971e-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_IncomeLossFromContinuingOperationsBeforeIncomeTaxesMinorityInterestAndIncomeLossFromEquityMethodInvestments_ffc350a0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_OtherNonoperatingIncomeExpense_f216971e-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IncomeTaxExpenseBenefit" xlink:label="loc_us-gaap_IncomeTaxExpenseBenefit_0106fc64-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_NetIncomeLoss_f0af6c2a-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IncomeTaxExpenseBenefit_0106fc64-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
  </calculationLink>
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ConsolidatedStatementsOfShareholdersEquityAndComprehensiveIncome" xlink:type="extended">
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_ComprehensiveIncomeNetOfTax" xlink:label="loc_us-gaap_ComprehensiveIncomeNetOfTax_e63cc850-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_NetIncomeLoss" xlink:label="loc_us-gaap_NetIncomeLoss_f0af6c2a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_ComprehensiveIncomeNetOfTax_e63cc850-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_NetIncomeLoss_f0af6c2a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_OtherComprehensiveIncomeForeignCurrencyTransactionAndTranslationAdjustmentNetOfTaxPortionAttributableToParent" xlink:label="loc_us-gaap_OtherComprehensiveIncomeForeignCurrencyTransactionAndTranslationAdjustmentNetOfTaxPortionAttributableToParent_081efc40-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_ComprehensiveIncomeNetOfTax_e63cc850-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_OtherComprehensiveIncomeForeignCurrencyTransactionAndTranslationAdjustmentNetOfTaxPortionAttributableToParent_081efc40-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="wfm-20120408.xsd#wfm_ReclassificationAdjustmentsForAmountsIncludedInIncomeNetOfIncomeTaxes" xlink:label="loc_wfm_ReclassificationAdjustmentsForAmountsIncludedInIncomeNetOfIncomeTaxes_cad72806-2153-11e1-a46b-1231380b3199" xlink:type="locator" />
    <calculationArc order="3" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_ComprehensiveIncomeNetOfTax_e63cc850-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_wfm_ReclassificationAdjustmentsForAmountsIncludedInIncomeNetOfIncomeTaxes_cad72806-2153-11e1-a46b-1231380b3199" xlink:type="arc" />
    <loc xlink:href="wfm-20120408.xsd#wfm_OtherComprehensiveIncomeChangeInUnrealizedGainsLossesNetOfTax" xlink:label="loc_wfm_OtherComprehensiveIncomeChangeInUnrealizedGainsLossesNetOfTax_caddce72-2153-11e1-a46b-1231380b3199" xlink:type="locator" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_ComprehensiveIncomeNetOfTax_e63cc850-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_wfm_OtherComprehensiveIncomeChangeInUnrealizedGainsLossesNetOfTax_caddce72-2153-11e1-a46b-1231380b3199" xlink:type="arc" />
  </calculationLink>
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ConsolidatedStatementsOfShareholdersEquityAndComprehensiveIncomeParenthetical" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/DocumentAndEntityInformation" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/EarningsPerShare" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/EarningsPerShareDetails" xlink:type="extended">
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_WeightedAverageNumberOfDilutedSharesOutstanding" xlink:label="loc_us-gaap_WeightedAverageNumberOfDilutedSharesOutstanding_f986d78e-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_IncrementalCommonSharesAttributableToShareBasedPaymentArrangements" xlink:label="loc_us-gaap_IncrementalCommonSharesAttributableToShareBasedPaymentArrangements_edb1d10c-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_WeightedAverageNumberOfDilutedSharesOutstanding_f986d78e-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_IncrementalCommonSharesAttributableToShareBasedPaymentArrangements_edb1d10c-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_WeightedAverageNumberOfSharesOutstandingBasic" xlink:label="loc_us-gaap_WeightedAverageNumberOfSharesOutstandingBasic_f9898fce-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_WeightedAverageNumberOfDilutedSharesOutstanding_f986d78e-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_WeightedAverageNumberOfSharesOutstandingBasic_f9898fce-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
  </calculationLink>
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/EarningsPerShareTables" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/FairValueMeasurements" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/FairValueMeasurements2Details" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/FairValueMeasurementsDetails" xlink:type="extended">
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AssetsFairValueDisclosure" xlink:label="loc_us-gaap_AssetsFairValueDisclosure_08d3aabe-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AvailableForSaleSecuritiesFairValueDisclosure" xlink:label="loc_us-gaap_AvailableForSaleSecuritiesFairValueDisclosure_049c1c6a-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AssetsFairValueDisclosure_08d3aabe-2586-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AvailableForSaleSecuritiesFairValueDisclosure_049c1c6a-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
  </calculationLink>
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/FairValueMeasurementsTables" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/IncomeTaxes" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/IncomeTaxesDetails" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/IntangibleAssets" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/IntangibleAssetsDetails" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/IntangibleAssetsDetails2" xlink:type="extended">
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_FiniteLivedIntangibleAssetsFutureAmortizationExpense" xlink:label="loc_us-gaap_FiniteLivedIntangibleAssetsFutureAmortizationExpense_eba7bac0-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_FutureAmortizationExpenseRemainderOfFiscalYear" xlink:label="loc_us-gaap_FutureAmortizationExpenseRemainderOfFiscalYear_08faad26-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_FiniteLivedIntangibleAssetsFutureAmortizationExpense_eba7bac0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_FutureAmortizationExpenseRemainderOfFiscalYear_08faad26-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_FutureAmortizationExpenseYearTwo" xlink:label="loc_us-gaap_FutureAmortizationExpenseYearTwo_ec2018e4-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_FiniteLivedIntangibleAssetsFutureAmortizationExpense_eba7bac0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_FutureAmortizationExpenseYearTwo_ec2018e4-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_FutureAmortizationExpenseYearThree" xlink:label="loc_us-gaap_FutureAmortizationExpenseYearThree_ec1f5d28-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="3" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_FiniteLivedIntangibleAssetsFutureAmortizationExpense_eba7bac0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_FutureAmortizationExpenseYearThree_ec1f5d28-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_FutureAmortizationExpenseYearFour" xlink:label="loc_us-gaap_FutureAmortizationExpenseYearFour_ec1e00e0-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="4" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_FiniteLivedIntangibleAssetsFutureAmortizationExpense_eba7bac0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_FutureAmortizationExpenseYearFour_ec1e00e0-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_FutureAmortizationExpenseYearFive" xlink:label="loc_us-gaap_FutureAmortizationExpenseYearFive_ec1d63d8-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="5" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_FiniteLivedIntangibleAssetsFutureAmortizationExpense_eba7bac0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_FutureAmortizationExpenseYearFive_ec1d63d8-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_FutureAmortizationExpenseAfterYearFive" xlink:label="loc_us-gaap_FutureAmortizationExpenseAfterYearFive_08fa3c6a-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="6" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_FiniteLivedIntangibleAssetsFutureAmortizationExpense_eba7bac0-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_FutureAmortizationExpenseAfterYearFive_08fa3c6a-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
  </calculationLink>
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/IntangibleAssetsTables" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/InvestmentsDetails" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/InvestmentsDetails2" xlink:type="extended">
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AvailableForSaleSecuritiesNoncurrent" xlink:label="loc_us-gaap_AvailableForSaleSecuritiesNoncurrent_f01a87ae-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AvailableForSaleSecuritiesAmortizedCost" xlink:label="loc_us-gaap_AvailableForSaleSecuritiesAmortizedCost_fa11281c-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AvailableForSaleSecuritiesNoncurrent_f01a87ae-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AvailableForSaleSecuritiesAmortizedCost_fa11281c-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AvailableforsaleSecuritiesGrossUnrealizedGain" xlink:label="loc_us-gaap_AvailableforsaleSecuritiesGrossUnrealizedGain_09db1640-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AvailableForSaleSecuritiesNoncurrent_f01a87ae-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AvailableforsaleSecuritiesGrossUnrealizedGain_09db1640-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AvailableForSaleSecuritiesGrossUnrealizedLosses1" xlink:label="loc_us-gaap_AvailableForSaleSecuritiesGrossUnrealizedLosses1_0d531534-2586-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="3" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AvailableForSaleSecuritiesNoncurrent_f01a87ae-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AvailableForSaleSecuritiesGrossUnrealizedLosses1_0d531534-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_AvailableForSaleSecuritiesCurrent" xlink:label="loc_us-gaap_AvailableForSaleSecuritiesCurrent_f01cf5f2-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AvailableForSaleSecuritiesCurrent_f01cf5f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AvailableForSaleSecuritiesAmortizedCost_fa11281c-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <calculationArc order="2" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AvailableForSaleSecuritiesCurrent_f01cf5f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AvailableforsaleSecuritiesGrossUnrealizedGain_09db1640-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <calculationArc order="3" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_us-gaap_AvailableForSaleSecuritiesCurrent_f01cf5f2-2585-11e0-bc05-7b821c07cce9" xlink:to="loc_us-gaap_AvailableForSaleSecuritiesGrossUnrealizedLosses1_0d531534-2586-11e0-bc05-7b821c07cce9" xlink:type="arc" />
  </calculationLink>
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/InvestmentsDetails2Calc2" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/InvestmentsNotes" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/InvestmentsTables" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/LongTermDebt" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/LongTermDebtDetails" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/RecentAccountingPronouncements" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/RelatedPartyTransactions" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/RelatedPartyTransactionsDetails" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ReservesForClosedProperties" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ReservesForClosedPropertiesDetails" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ReservesForClosedPropertiesTables" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ShareBasedPayments" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ShareBasedPaymentsDetails" xlink:type="extended">
    <loc xlink:href="wfm-20120408.xsd#wfm_ShareBasedCompensationNetOfTax" xlink:label="loc_wfm_ShareBasedCompensationNetOfTax_cade6a6c-2153-11e1-a46b-1231380b3199" xlink:type="locator" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_ShareBasedCompensation" xlink:label="loc_us-gaap_ShareBasedCompensation_eaf41c9a-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="1" weight="1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_wfm_ShareBasedCompensationNetOfTax_cade6a6c-2153-11e1-a46b-1231380b3199" xlink:to="loc_us-gaap_ShareBasedCompensation_eaf41c9a-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
    <loc xlink:href="http://xbrl.fasb.org/us-gaap/2011/elts/us-gaap-2011-01-31.xsd#us-gaap_EmployeeServiceShareBasedCompensationTaxBenefitFromCompensationExpense" xlink:label="loc_us-gaap_EmployeeServiceShareBasedCompensationTaxBenefitFromCompensationExpense_eaf17260-2585-11e0-bc05-7b821c07cce9" xlink:type="locator" />
    <calculationArc order="2" weight="-1" xlink:arcrole="http://www.xbrl.org/2003/arcrole/summation-item" xlink:from="loc_wfm_ShareBasedCompensationNetOfTax_cade6a6c-2153-11e1-a46b-1231380b3199" xlink:to="loc_us-gaap_EmployeeServiceShareBasedCompensationTaxBenefitFromCompensationExpense_eaf17260-2585-11e0-bc05-7b821c07cce9" xlink:type="arc" />
  </calculationLink>
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ShareBasedPaymentsDetails2" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ShareBasedPaymentsTables" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ShareholdersEquity" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ShareholdersEquityDetails" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ShareholdersEquityDetails2" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/ShareholdersEquityTables" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/SummaryOfSignificantAccountingPolicies" xlink:type="extended" />
  <calculationLink xlink:role="http://www.wholefoodsmarket.com/role/SummaryOfSignificantAccountingPoliciesPolicies" xlink:type="extended" />
</linkbase>
