<apex:page controller="checkbox1" >
<apex:form >

<script>
function confirmDisbaled(ifchecked, id1 ,id2,id3) {


document.getElementById(id1).disabled = ifchecked;
document.getElementById(id2).disabled = ifchecked;
document.getElementById(id3).disabled = ifchecked;
}
</script>
<apex:pageBlock title="student details" >
<apex:actionRegion >
<apex:pageBlockTable value="{!items}" var="s">
    <apex:column value="{!s.Name}"/>
 
    <apex:column >
    <apex:facet name="header">
    <apex:inputCheckbox onclick="checkAll1(this)" id="ch"  onchange="return confirmDisbaled(this.checked, '{!$Component.ch2}','{!$Component.ch3}');"/>
    </apex:facet>
    
    <apex:inputCheckbox value="{!s.present__c}" id="ch1"  />
    </apex:column>
   <!-- onclick="if (this.checked) document.getElementById('ch3').disabled=true; else document.getElementById('ch3').disabled = false;"-->
    <apex:column >
    <apex:facet name="header">
    <apex:inputCheckbox onclick="checkAll2(this)" id="ch2"  onchange="return confirmDisbaled(this.checked, '{!$Component.ch}','{!$Component.ch1}');"/>
    </apex:facet>
    
    <apex:inputCheckbox value="{!s.absent__c}" id="ch3"/>
    </apex:column>
    
</apex:pageBlockTable>
</apex:actionRegion>
</apex:pageBlock>
</apex:form>
<script>
        function checkAll1(cb)
        {
            var inputElem = document.getElementsByTagName("input");
            for(var i=0; i<inputElem.length; i++)
            {
                if(inputElem[i].id.indexOf("ch1")!=-1)
                inputElem[i].checked = cb.checked;
                
                 
            }
        }    
    </script>
    <script>
        function checkAll2(cb)
        {
            var inputElem = document.getElementsByTagName("input");
            for(var i=0; i<inputElem.length; i++)
            {
                if(inputElem[i].id.indexOf("ch3")!=-1)
                inputElem[i].checked = cb.checked;
                 
                 
            }
        }    
    </script>
    
</apex:page>

in this page ch1,ch3 checkboxes  did'nt disable how to disable those please correct it