moved everything into /trunk/ to create the standard svn layout, for use with tools that require this (eg. git-svn). IMPORTANT: do NOT do an `svn up`. instead, re-use your working copy's existing files with `svn switch` (http://svnbook.red-bean.com/en/1.6/svn.ref.svn.c.switch.html).
inputs/Makefile: download-logs: use bin/sync_upload like upload/download
bugfix: inputs/Makefile: upload, download: need to exclude files in .rsync_ignore, so that large local-only files, such as inputs/GBIF/raw_occurrence_record_plants/table*.tsv, do not have to be synced before `make inputs/upload` can complete (the corresponding .gz gets extracted instead); and deleted temp files in inputs/VegBIEN/TWiki/, such as active sessions, are not added back to the live copy on vegbiendev. previously, fixing this required extracting the rsync command run by `make inputs/upload`, etc. and manually editing it to exclude the applicable .rsync_ignore files, each time `make inputs/upload`, etc. was run (including before every column-based import).
lib/common.Makefile: $(subMake): Removed `--makefile=../input.Makefile`, which is specific just to inputs/Makefile
inputs/Makefile: Input data: $(rsyncSrcs): Also include log files other than install.log.sql
inputs/Makefile: Import logs: $(rsyncLogs): Include log files at any depth in the directory tree rather than just 1-2 levels deep. This adds log files whose containing directories have been moved to _archive/ directories.
inputs/Makefile: Input data: $(rsyncLogs): Also include logs from the datasource's top-level logs/ dir, which contains make_analytical_db.log.sql
inputs/.TNRS/tnrs/tnrs.make: Moved log file to logs/tnrs.make.log.sql so it would automatically be synced along with the other import logs
inputs/Makefile: Import logs: $(rsyncLogs): Always download the TNRS daemon log, rather than requiring tnrs_log=1 to be specified to download it
inputs/Makefile: $(rsyncLogs): Use $(rsync) instead of $(rsync*) now that it supports excluding just temp files and .svn rather than all .*
inputs/Makefile: Import logs: Don't download .TNRS/tnrs/tnrs.make.log by default because it changes each time `make inputs/.TNRS/tnrs/tnrs-remake` is run, and any version downloaded for debugging should be preserved. It can still be downloaded by setting the tnrs_log env var.
inputs/Makefile: Import logs: Also download inputs/.TNRS/tnrs/tnrs.make.log
inputs/Makefile: Import logs: Use new $(rsync*) to also sync datasources starting with ., such as .TNRS
inputs/Makefile: Input data: $(rsyncSrcs): Also exclude logs subdirs located at more than one level below the root, which occurs for example when a table subdir is moved into _archive/
inputs: Move src subdir into main dir, using the steps at <https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/VegCSV_subfolders#Move-src-subdir-into-main-dir>
inputs/Makefile: Input data sync: Updated rsync filter for new subdirs layout
inputs/Makefile: Import logs: Fixed bug where excluded install logs needed to be renamed according to the new name format (from <https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/VegCSV_subfolders#Move-log-files-into-subfolders>)
inputs: Moved log files into subfolders, using steps at <https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/VegCSV_subfolders#Move-log-files-into-subfolders>
inputs/Makefile: Added download-logs to download import logs onto local machine and added it to the "After a new import" steps
Moved generally useful targets and vars from inputs/Makefile to lib/common.Makefile and lib/forwarding.Makefile
inputs/Makefile: Input data: Added upload target
inputs/Makefile: Added download to download input data from vegbiendev
Makefiles: Let subdir's Makefile decide whether to delete on error
input.Makefile: Moved log and trace files to new import subdir. Moved subdir-adding code from inputs/Makefile to input.Makefile.
inputs/Makefile: Added %/-add to re-add existing dirs
inputs/Makefile: %-add: `svn mkdir` the datasource's standard subdirs
Makefiles: Added .DELETE_ON_ERROR to delete target if recipe fails
Makefiles: Use .SECONDARY with no prerequisites instead of setting a .PRECIOUS for each intermediate, to simplify turning off automatic deletion of intermediate files
inputs/Makefile: Fixed forwarding of empty targets to subdirs
Makefiles: Added documentation labels to each section
inputs/Makefile: Added %-add target to add new inputs
Makefiles: Recurse into outermost subdir rather than bypassing it and going directly to innermost subdir
inputs/Makefile: Don't use subdir makefiles because they are no longer needed
Makefiles: Added empty Makefile target so that Makefiles are not included in the targets recursively run on subdirs
Added inputs/Makefile to run input targets recursively on each input
