web/index.php: removed no longer used PHP redirects. these are now handled by Apache .htaccess files instead.
web/people/Brad_Boyle/data_provenance: abbreviated to provenance to enable shorter URLs
added web/people/Brad_Boyle/identifiers
bugfix: web/index.php: Brad: updated resource names to match filesystem
bugfix: web/index.php: Brad: fixed URL base
web/index.php: sources: reordered/recategorized to match the subdirs and wiki.vegpath.org/VegCore
merged inputs/VegBIEN into schemas/VegBIEN, since for the purposes of the data dictionary URLs, VegBIEN is primarily an exchange schema
added web/people/Brad_Boyle/identifier_examples, which is used by the VegBIEN data dictionary
placed web/BIEN3/TWiki/lib/LocalSite.cfg under version control because it contains absolute paths that need to be maintained
web/main.conf: updated paths
web/people/Brad_Boyle/*/.htaccess: set the destination filename using RewriteRule env, to allow escaping " " with "\ " instead of the difficult-to-read "\%20"
web/people/Brad_Boyle/*/.htaccess: use relative paths to new symlinks to avoid hardcoding paths
web/BIEN3/TWiki/twiki.conf: updated paths
web/people/Brad_Boyle/: added symlinks to Brad's files that are used in the data dictionaries
schemas/VegBIEN/attribution/: moved into schemas/VegBIEN/planning/
schemas/VegBIEN/: moved Redmine/, TWiki/ to web/BIEN3/ since they relate to the BIEN3 project as a whole, not just the database
web/BIEN3/Redmine/svn/.htaccess: removed unneeded RewriteBase because this does not use a relative redirect with ../
web/BIEN3: link to Redmine instead of directly to the wiki, since the Redmine/ dir should manage where BIEN3 default-redirects to
web/.fs: changed to point directly to the svn root, so that the VegBIEN dir does not contain any recursive symlinks
web/links/index.htm: updated to Firefox bookmarks: oXygen XML editor: added download link for the version (13.2) that works with NCEAS's license. bash: added fix to enable Ctrl+Arrow to work. GVFS: added links for file permissions bug. iPlant: added Atmosphere/Data Store links. Quick links: updated vegpath.org link to `vegpath.org.`.
web/username_prefix.php: username/password prompt message: added instructions to always append "." when visiting the homepage of the site ("vegpath.org.")
web/username_prefix.php: deletion comments: require ... strikethrough on both () to avoid ambiguity when the deleted part starts or ends with -
web/username_prefix.php: deletion comments: also support strikethrough syntax for clarity: (c_)x@url -> c_x@url
web/username_prefix.php: insertion comments: documented that the semantic meaning of the [] portion also applies, even though it's not included in the linked term name
web/username_prefix.php: added support for deletion comments of the form (c_)x(_d)@url -> c_x_d@url . deletion indicates that the semantic meaning of the () portion does not apply, even though it's included in the linked term name.
web/username_prefix.php: comments: use [] instead of () because in writing, [] denotes insertion, while () (as an editing mark) denotes something to remove
bugfix: web/index.php: fixed bug where full directory index would not display correctly if invoked as /index.php instead of / (caused by incorrect URL)
web/username_prefix.php: word-wraps: renamed to linewraps
web/username_prefix.php: added support for word-wraps of the form x_-_.y@url -> x.y@url (the _ are needed to work in Google spreadsheets)
bugfix: web/username_prefix.php: comments: need to use syntax that doesn't use : because Firefox will not update the "password" for the website with the new value after the : . the new syntax use () instead.
web/username_prefix.php: comment prefixes: support embedded ":" in comment
web/username_prefix.php: user2path(): comment prefixes: documented how to put the comment on a separate line when word-wrapping (c-_:x@url). this format works in Google spreadsheets.
web/username_prefix.php: user2path(): added support for comment prefixes, which can be used to include term categories. note: when URL is used without http:// , you must include a non-letter in the comment (eg. c_:x@url) to work in Firefox.
web/username_prefix.php: user2path(): visually separated steps for easier readability
bugfix: web/username_prefix.php: user2path(): padding used to visually separate 1st element of URL: require all padding to be __ because sometimes terms contain a leading or trailing _
bugfix: web/username_prefix.php: user2path(): padding used to visually separate 1st element of URL: support embedded @ inside highlighted part: also need to match end-padding when followed by "."
web/username_prefix.php: user2path(): padding used to visually separate 1st element of URL: support embedded @ inside highlighted part
web/username_prefix.php: user2path(): added support for padding used to visually separate 1st element of URL (x@url -> x@url)
bugfix: web/username_prefix.php: need to handle : in login (which would normally indicate a password)
web/.htaccess: auto-detect dotpath: need to explicitly set usernames_disabled=1, because for some reason the `%{QUERY_STRING} =""` check doesn't detect a query string
web/.htaccess: auto-detect dotpath: removed handling of no longer used @ prefix (used to be used by username-based prefix subpaths)
bugfix: web/.htaccess: username-based prefix subpaths: usernames_disabled: also need to support it being set in the current round
bugfix: web/.htaccess: username-based prefix subpaths: removed support for query strings because these are often used at the root level, and should then be treated as a regular dotpath rather than something with a username-based prefix
bugfix: web/.htaccess: forced mod_autoindex listing: use $usernames_disabled to ensure that usernames stay disabled even when /all path is removed
bugfix: web/.htaccess: username-based prefix subpaths: added back usernames_disabled env var, because it is needed if a RewriteRule in a previous round creates an empty path (mod_rewrite runs the RewriteRules repeatedly until no replacements are made)
bugfix: web/.htaccess: username-based prefix subpaths: REDIRECT_REQUEST_URI: also allow it to be unset, as it is when using usernames
fix: web/index.php: directory index: don't append QUERY_STRING, as this is not used by /all
web/.htaccess: username-based prefix subpaths: removed usernames_disabled env var because the bug that appeared to require this has now been fixed
bugfix: web/.htaccess: username-based prefix subpaths: also need to check original URL (REDIRECT_REQUEST_URI), in addition to current URL (REQUEST_URI) to see if usernames should be disabled
web/.htaccess: username-based prefix subpaths: allow explicitly disabling in a RewriteRule to handle special cases
bugfix: web/index.php: directory index: use QUERY_STRING, not HTTP_AUTHORIZATION (HTTP_AUTHORIZATION was probably left over from a previous attempt to provide username-based prefix subpaths)
web/.htaccess, username_prefix.php: username-based prefix subpaths: don't require the // at the end , to avoid clutter. IMPORTANT: in order to access the home page after visiting a URL with a username, you must now append "." to the host ("vegpath.org.") (other pages are not affected by this problem). since vegpath.org is a URL shortener, this is a worthwhile tradeoff to avoid needing the // suffixes everywhere.
bugfix: web/.htaccess: subdomains: each path element must be non-empty, to avoid matching a trailing . incorrectly
web/.htaccess: username-based prefix subpaths: updated documentation to use leading // instead of trailing ? or ?@
web/username_prefix.php: $_SERVER["PHP_AUTH_USER"] test: factored $_SERVER["SCRIPT_URL"] out of both branches of if statement
web/username_prefix.php: don't remove @ from query string because that is no longer a special character
fix: web/.htaccess: username-based prefix subpaths: changed format to subpath@host//path because the trailing ? makes it look like the sentence the URL is in is a question
web/.phpPgAdmin/.htaccess: action redirect: only append ? if adding to the query string
web/.phpPgAdmin/.htaccess: view: default to displaying the columns rather than the definition
web/.phpPgAdmin/.htaccess: support viewing the columns of a view rather than the definition
web/.phpPgAdmin/.htaccess: RewriteRules: use overridable action var
web/.phpPgAdmin/.htaccess: support overriding action param in a later RewriteRule
web/.phpPgAdmin/.htaccess: removed skip= because this creates a confusing control flow, and prevents using chain
web/.htaccess: auto-detect dotpath in query string: also auto-prepend & for query strings appended to a username-based prefix, so that these don't need to have & manually prepended to make them appendable
web/.htaccess: auto-detect dotpath in query string: also auto-detect dotpath for query strings appended to a username-based prefix, so that these don't need to have . prepended to make them appendable
web/username_prefix.php: no prefix: use $_SERVER["SCRIPT_URL"] instead of rtrimming $_SERVER["REQUEST_URI"]
web/username_prefix.php: has prefix: use same expr whether or not it has a query string, because the with-query-string expr works for both cases
web/username_prefix.php: use if statements instead of `? :` for clarity
web/username_prefix.php: use $subpath instead of $_SERVER["PHP_AUTH_USER"] for clarity
web/.htaccess, username_prefix.php: username-based prefix subpaths: support dotpath in query string (which will be appended verbatim to the prefix). use "__?@__" instead of "__?__&" to signal username-based prefix, so that the query string does not end in a dangling & .
bugfix: web/.htaccess: auto-detect dotpath in query string: don't exclude dotpaths that come before a normal query string (&k=v...)
web/.htaccess: auto-detect dotpath in query string: documented what each RewriteCond does
web/.htaccess: auto-detect dotpath in query string: use %{QUERY_STRING} instead of %0 for clarity
web/.htaccess, web/username_prefix.php: username-based prefix subpaths: support query strings in addition to paths
web/index.php: removed no longer needed redirection of username-based prefix subpaths, which is now handled by web/.htaccess
web/.htaccess: handle username-based prefix subpaths (of the form "subpath@url?") for all paths rather than just for the root (which were handled by index.php)
added web/username_prefix.php, for use with username-based prefix redirects
web/index.php: subpath@host? redirects: also support multiple @ and nested . in prefix: a@b.c@host? -> host?b.c.a
web/index.php: support prefix redirect of the form subpath@host? , which is better than subpath.host because case is preserved and special chars allowed. (must require trailing ? for redirect, to avoid needing login to view the page itself.)
bugfix: web/index.php: full directory index: appending query string: need to use $_SERVER["QUERY_STRING"], not $_SERVER["HTTP_AUTHORIZATION"] for this
bugfix: web/.phpPgAdmin/.htaccess: only append subject if non-empty, to avoid confusing redirect.php
bugfix: web/.phpPgAdmin/.htaccess: custom pages: need to handle in query string because .php filename would be treated as path element
web/.phpPgAdmin/.htaccess: support custom .php pages
web/links/index.htm: updated to Firefox bookmarks: iPlant links: fixed broken links
web/links/index.htm: updated to Firefox bookmarks: starscream links: removed favicons so they wouldn't wake the Mac up on network access whenever someone opens the links page
web/links/index.htm: updated to Firefox bookmarks: fixed broken links
web/links/index.htm: updated to Firefox bookmarks: Ubuntu 14.04 upgrade: rsync: documented that this breaks use of ~ to reference the remote user's home dir
web/links/index.htm: updated to Firefox bookmarks: Ubuntu 14.04 upgrade: Apache: documented that MultiViews is actually only broken for redirects with the filename "index"
web/.htaccess: for dirs, redirect to index.*: document it is actually just the filename "index" that MultiViews is broken for, other filenames work fine
bugfix: web/index.php: full directory index: only display if invoked as "vegpath.org/", not "vegpath.org/index.php"
bugfix: web/.htaccess: for dirs, redirect to index.*: added workaround for Ubuntu 14.04, which breaks MultiViews
