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If you cannot get wget to work with .netrc or .wgetrc, you can fall back to using command line options. First, make sure that all instances of .netrc and .wgetrc have been removed. Next, pick one file that you are attempting to download and try wget with the --http-user and --ask-password option:
wget --http-user =john.q.smith --ask-password --keep-session-cookies http://e4ftl01.cr.usgs.gov/ASTT/AST_L1T.003/2016.09.11/AST_L1T_00309112016020239_20160912100405_5264_QA.txt
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