While restoring files from a Time Machine backup, I got the error message "The operation can’t be completed because you don’t have permission to access some of the items." because of problems with files in one folder. What's the safest way to deal with this?

The folder in question has permissions like:

Andrew-Grimms-MacBook-Pro:kmer agrimm$ pwd
/Volumes/Time Machine Backups/Backups.backupdb/Andrew Grimm’s MacBook Pro/2010-12-09-224309/Macintosh HD/Users/agrimm/ruby/kmer
Andrew-Grimms-MacBook-Pro:kmer agrimm$ ls -ltra
total 6156896
drwxrwxrwx@ 19 agrimm  staff        680 18 Jan  2008 Saccharomyces_cerevisiae
-r--------@  1 agrimm  staff   60221852  4 Aug  2009 hs_ref_GRCh37_chrY.fa
-r--------@  1 agrimm  staff  157488804  4 Aug  2009 hs_ref_GRCh37_chrX.fa
(snip a few files)
-r--------@  1 agrimm  staff     676063 27 Oct  2009 NC_001143.fna
-rw-r--r--@  1 agrimm  staff       6148 23 Mar  2010 .DS_Store
drwxr-xr-x@  3 agrimm  staff       1530 23 Mar  2010 .
drwxr-xr-x@ 30 agrimm  staff       1054 20 Nov 14:43 ..

Is it ok to do sudo chmod, or is there a safer approach?

Background: Files within the original folder on my computer also had weird permissions - I suspect I may have used sudo to copy some files from a thumbdrive onto my computer.