[build] Upgrade Gradle plugins (#8166)

I upgraded all plugins I could see except org.ysb33r.doxygen. 2.0 made
breaking changes, and I couldn't figure out how to migrate.

Most of the changes are for suppressing new linter purification rites.

wpilibc/src/main/native/cpp/DigitalGlitchFilter.cpp

@@ -39,6 +39,7 @@ DigitalGlitchFilter::~DigitalGlitchFilter() {
   if (m_channelIndex >= 0) {
     std::scoped_lock lock(m_mutex);
     m_filterAllocated[m_channelIndex] = false;
+    m_channelIndex = -1;
   }
 }