<?xml version="1.0"?>
<ownershipDocument>
    <schemaVersion>X0201</schemaVersion>

    <documentType>3/A</documentType><periodOfReport>2002-09-23</periodOfReport><dateOfOriginalSubmission>2002-09-26</dateOfOriginalSubmission>
    <noSecuritiesOwned>0</noSecuritiesOwned>

    <issuer>
        <issuerCik>0000883813</issuerCik>
        <issuerName>CHRONIMED INC</issuerName>
        <issuerTradingSymbol>CHMD</issuerTradingSymbol></issuer><reportingOwner>
        <reportingOwnerId>
            <rptOwnerCik>0001195554</rptOwnerCik>
            <rptOwnerName>REAGAN BRIAN J</rptOwnerName>
        </reportingOwnerId>
        <reportingOwnerAddress>
            <rptOwnerStreet1>10900 RED CIRCLE DRIVE</rptOwnerStreet1>
            <rptOwnerStreet2></rptOwnerStreet2>
            <rptOwnerCity>MINNETONKA</rptOwnerCity>
            <rptOwnerState>MN</rptOwnerState>
            <rptOwnerZipCode>55343</rptOwnerZipCode>
            <rptOwnerStateDescription></rptOwnerStateDescription>
        </reportingOwnerAddress>
            <reportingOwnerRelationship>
<isDirector>0</isDirector><isOfficer>1</isOfficer><isTenPercentOwner>0</isTenPercentOwner><isOther>0</isOther><officerTitle>VP Corporate Development</officerTitle></reportingOwnerRelationship></reportingOwner><derivativeTable><derivativeHolding><securityTitle><value>Incentive Stock Options</value></securityTitle><conversionOrExercisePrice><value>4.80</value></conversionOrExercisePrice><exerciseDate><footnoteId id="F1"/></exerciseDate><expirationDate><value>2008-06-04</value></expirationDate><underlyingSecurity><underlyingSecurityTitle><value>Common Stock</value></underlyingSecurityTitle><underlyingSecurityShares><value>25000</value></underlyingSecurityShares></underlyingSecurity><ownershipNature><directOrIndirectOwnership><value>D</value></directOrIndirectOwnership><natureOfOwnership><value/></natureOfOwnership></ownershipNature></derivativeHolding></derivativeTable><footnotes><footnote id="F1">Options vest annually in 25% increments with possible acceleration of vesting based on issuer share performance.</footnote></footnotes><remarks/><ownerSignature><signatureName>Brian J. Reagan</signatureName><signatureDate>2003-09-19</signatureDate></ownerSignature></ownershipDocument>

