refactor: move more commands to internal/cmd (#207)

* refactor: move more commands to internal/cmd

Part of https://github.com/ooni/probe/issues/1335.

We would like all commands to be at the same level of engine
rather than inside engine (now that we can do it).

* fix: update .gitignore

* refactor: also move jafar outside engine

* We should be good now?

.gitignore

@@ -2,9 +2,15 @@
 /*.jsonl
 /*.tar.gz
 /*.zip
+/apitool
+/apitool.exe
 /coverage.cov
 /miniooni
 /miniooni.exe
+/oohelper
+/oohelper.exe
+/oohelperd
+/oohelperd.exe
 /ooniprobe
 /ooniprobe.exe
 /ooniprobe_checksums.txt