<?php $class=""; // set your class to nothing outside the loop ?>
<?php if (have_posts()) : while ( have_posts()) : the_post(); ?>
<?php $class = ('first-container' == $class) ? 'second-container' : 'first-container'; // alternate classes ?>
<div <?php post_class('clearfix') ?> id="post-<?php the_ID(); ?>">
<h2><a href="https://wordpress.stackexchange.com/questions/77704/<?php the_permalink() ?>"><?php the_title(); ?></a></h2>
<div class="<?php echo $class ?>">
If $class equals “first-container” set it to “second-container” else set it to “first-container”. Because we set $container to nothing initially, the first iteration will set $class to “first-container”, after which you alternate.
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