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Many years ago, I bought a license for Perfect Declipper and used to use the VST Plugin on Audacity to try and get some dynamics back from some of the more compressed CDs in my collection (unfortunately, I'm into Heavy Metal, which is a genre with some very compressed modern releases). As I use Linux, I ran the Windows version of Audacity through Wine, as it seemed a simple, if time intensive way, of getting the plugin to work. Unfortunately, recent versions of Audacity running through Wine seem to forget the license key every time they close and, even when re-entering it, I sometimes get the watermark over the top of the processed audio.
Hi! I too came to Stereo Tool via repairing metal in Audacity with Perfect Declipper. Since then Hans and team have developed a batch processor for this called WatchCat. Sadly, WatchCat is not a native Linux software, nor does it work fully in Wine. There has been some interest in it being ported to Linux, but this hasn't happened yet. I'll consider this another vote for WatchCat Linux.
As far as enabling only the simple repair functions (namely the Declipper), you first want to click the reset button (looks like a refresh icon) and do all settings. Next you'll want to click the preset button, navigate to the Repair tab, then look for one called Modern Recordings (or Modern Recordings, Low Bitrate MP3/AAC input if your source files are of poor quality) and choose it. Make sure Repair is checked, then Load Selected Settings.
After this, you'll probably want to enable one of the clippers (I don't know if the Advanced clipper comes with a PD license, but it comes with ST Basic) and reduce its drive. This lowers the output level to make room for your new peaks and keeps them from clipping. 50% on the Simple Clipper is equal to -6db on the Advanced Clipper, and IIRC that's the default headroom setting PD offers.
From here you can export the sts file in the preset manager.
Let me know if you need any more assistance.
edit: Here's the Modern Recordings repair preset with -6dB drive on the Simple Clipper. This is as close to the default settings for Perfect Declipper as I could find without enabling any processing (no Natural Dynamics). It also uses the Simple Clipper instead of the Advanced Clipper, since PD never had the AC, despite it sounding much better -- so enable the Advanced Clipper if you own ST Basic as well as a Declipper license.