Core/ModuleStateFixer.php
protected function _addModuleFiles($aModuleFiles, $sModuleId)
    {
        $aFiles = (array) Registry::getConfig()->getConfigParam('aModuleFiles');

        $old =  isset($aFiles[$sModuleId]) ? $aFiles[$sModuleId] : null;
        if ($aModuleFiles !== null) {
            $aModuleFiles = array_change_key_case($aModuleFiles, CASE_LOWER);
        }

        if (is_array($aModuleFiles)) {
            $diff = $this->diff($old,$aModuleFiles);
            if ($diff) {
                $what = $old === null ? ' everything' : var_export($diff, true);
                $this->output->warning("$sModuleId fixing files");
                $this->output->debug(" $what");
                $aFiles[$sModuleId] = $aModuleFiles;
                $this->_saveToConfig('aModuleFiles', $aFiles);
                $this->needCacheClear = true;
            }
        } else {
            if ($old) {
                $this->output->warning("$sModuleId unregister files");
                $this->_deleteModuleFiles($sModuleId);
                $this->needCacheClear = true;
            }
        }

    }
protected function _addModuleFiles($aModuleFiles, $sModuleId)
    {
        $aFiles = (array) Registry::getConfig()->getConfigParam('aModuleFiles');

        $old =  isset($aFiles[$sModuleId]) ? $aFiles[$sModuleId] : null;
        if ($aModuleFiles !== null) {
            $aModuleFiles = array_change_key_case($aModuleFiles, CASE_LOWER);
        }

        if (is_array($aModuleFiles)) {
            $diff = $this->diff($old,$aModuleFiles);
            if ($diff) {
                $what = $old === null ? ' everything' : var_export($diff, true);
                $this->output->warning("$sModuleId fixing files");
                $this->output->debug(" $what");
                $aFiles[$sModuleId] = $aModuleFiles;
                $this->_saveToConfig('aModuleFiles', $aFiles);
                $this->needCacheClear = true;
            }
        } else {
            if ($old) {
                $this->output->warning("$sModuleId unregister files");
                $this->_deleteModuleFiles($sModuleId);
                $this->needCacheClear = true;
            }
        }

    }
Add module files to config for auto loader.

@param array  $aModuleFiles Module files array
@param string $sModuleId    Module id