Resolve check and freshen paths against the manifest's directory (closes #177)

Without --base, check and freshen now look for a manifest's files in the
directory that holds it, the file named or the one found in a directory
argument, instead of the current directory. So `mfer check /media/drive`
checks a drive against its own index.mf from anywhere. check of a manifest
given by URL still uses the current directory, and --base still overrides,
even when it names the current directory. The --base help text of both
commands and the README's Tool Examples state the default; the README gains
a freshen entry for this, which also names the hidden files and symlinks
freshen leaves out by default and the flags that include them.

Model: opus-5-5

README.md

@@ -273,9 +273,20 @@ are now tracked only in the [issues](https://git.eeqj.de/sneak/mfer/issues).
     - verifies checksums of all files in manifest, displaying error and exiting
       nonzero if any files are missing or corrupted, or have permission bits
       other than the mode the manifest records, unless that is `0000`
+    - looks for those files under the base directory: the one `--base` names, or
+      else the directory holding the manifest, or the current directory for a
+      manifest given by URL. So `mfer check /media/drive` checks a drive against
+      the `index.mf` at its root, from any directory
     - warns about each file under the base directory that the manifest does not
       list, hidden files included; with `--no-extra-files` each one is a failure
       instead
+- `mfer freshen` / `mfer freshen .`
+    - rewrites `index.mf` to list the files now under the directory holding it,
+      or under the one `--base` names, hashing only the files that are new or
+      changed
+    - leaves out hidden files unless given `--include-dotfiles`, and symlinks
+      unless given `--follow-symlinks`, which lists each symlink to a file under
+      its own name with the contents of the file it points to
 - `mfer fetch https://example.com/stuff/`
     - fetches `/stuff/index.mf` and downloads all files listed in manifest into
       the current directory, or the one given with `--dest`, and assures