NetBeans is a very popular PHP IDE among developers. Other popular IDEs include Komodo IDE, Zend Studio, Cloud 9 IDE, and PHPStorm. These four are commercial PHP IDEs. For PHP editors, Komodo Edit offers really good features and also supports multiple languages.
By default, Atom provides basic editing capabilities and everything you need to write PHP code. There are many packages to extend and make writing PHP code more efficient and provide a much better development experience.
For PHP I would recommend PhpStorm.
It supports FTP/SFTP synchronization, integrates well with Subversion, CVS, Mercurial and even with Git. Also, it supports HTML, CSS, JavaScript and handles language-mixing well like SQL or HTML blocks inside PHP code, JSON, etc.
But if you need Ruby you can try another IDE - RubyMine with same capabilities but for Ruby.
NetBeans. Check out 7.0.1.
It supports FTP/SFTP synchronization, integrates well with Subversion, CVS, Mercurial and even with Git (with plugin). Also, it supports HTML, CSS, JavaScript, popular frameworks and more.
And its free.
Too bad no one mentioned phpDesigner. It's really the best IDE I've came across (and I believe I've tried them all).
The main pro of this one is that it's NOT Java based. This keeps the whole thing quick.
Are you sure you're looking for an IDE? The features you're describing, along with the impression of being too complicated that you got from e.g. Aptana, suggest that perhaps all you really want is a good editor with syntax highlighting and integration with some common workflow tools. For this, there are tons of options.
I've used jEdit on several platforms successfully, and that alone puts it above most of the rest (many of the IDEs are cross-platform too, but Aptana and anything Eclipse-based is going to be pretty heavy-weight, if full-featured). jEdit has ready-made plugins for everything on your list, and syntax highlighting for a wide range of languages. You can also bring up a shell in the bottom of your window, invoke scripts from within the editor, and so forth. It's not perfect (the UI is better than most Java UIs, but not perfect yet I don't think), but I've had good luck with it, and it'll be a hell of a lot simpler than Aptana/Eclipse.
That said, I do like Aptana quite a bit for web development, it does a lot of the grunt work for you once you're over the learning curve.
Eclipse PDT is very nice.
I'm always amazed that more people don't use ActiveState Komodo.
It has the best debugging facilities of any PHP IDE I have tried, is a very mature product and has more useful features than you can shake a stick at. Of note, it has a fantastic HTTP inspector, Javascript debugger and Regular Expression Toolkit. You can get it so that it steps through your PHP, then you see your Javascript running, and then see your HTTP traffic going out over the wire!
It also comes in free (Komodo Edit) and open (OpenKomodo versions).
Oh, and if you don't always hack just on PHP, it's designed as a multi-language editor and rocks for Ruby and Python too.
I've been a happy customer for around 5 years.
There's no "best" IDE, only better and worse ones.
Right now I'm trying to settle in with Aptana. It has a lot of cruft that I don't want, like "Jaxer" doodads all over the place. It's reasonably fast, but chokes on large files when syntax highliting is on. I have not been able to figure out how to set up PHP debugging. Three good things about Aptana: easy plugin installations, very fast and intuitive Subversion plugins, ligning fast file search.
I tried Eclipse PDT and Zend for Eclipse, but they have nightmare levels of interface cruft. Installing plugins is a living horror of version mismatches and cryptic error messages.
I also use Komodo (they bought us licenses at work). Komodo has a very intuitive interface, but is ridiculously slow, chokes on medium sized files with syntax highlighting. File search is intuitive, but rather slow. Subversion integration is not that great - slow and buggy. If not for slowness, I would have probably stuck with Komodo, especially for the debugger.
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