logger: a Python logger. Most log messages are sent here.
logprint: a Python logger. Messages about available tilesources are sent here.
python(the default) or
memcached, specifying where tiles are cached. If memcached is not available for any reason, the python cache is used instead.
cache_python_memory_portion: If tiles are cached in python, the cache is sized so that it is expected to use less than 1 / (
cache_python_memory_portion) of the available memory. This is an integer.
cache_memcached_url: If tiles are cached in memcached, the url or list of urls where the memcached server is located. Default ‘127.0.0.1’.
cache_memcached_username: A username for the memcached server. Default
cache_memcached_password: A password for the memcached server. Default
cache_tilesource_memory_portion: Tilesources are cached on open so that subsequent accesses can be faster. These use file handles and memory. This limits the maximum based on a memory estimation and using no more than 1 / (
cache_tilesource_memory_portion) of the available memory.
cache_tilesource_maximum: If this is non-zero, this further limits the number of tilesources than can be cached to this value.
max_small_image_size: The PIL tilesource is used for small images if they are no more than this many pixels along their maximum dimension.
source_vips_ignored_names: Some tile sources can read some files that are better read by other tilesources. Since reading these files is suboptimal, these tile sources have a setting that, by default, ignores files without extensions or with particular extensions. This setting is a Python regular expressions. For bioformats this defaults to
Configuration from Python¶
As an example, configuration parameters can be set via python code like:
import large_image large_image.config.setConfig('max_small_image_size', 8192)
Configuration within the Girder Plugin¶
For the Girder plugin, these can also be set in the
girder.cfg file in a
large_image section. For example:
[large_image] # cache_backend, used for caching tiles, is either "memcached" or "python" cache_backend = "python" # 'python' cache can use 1/(val) of the available memory cache_python_memory_portion = 32 # 'memcached' cache backend can specify the memcached server. # cache_memcached_url may be a list cache_memcached_url = "127.0.0.1" cache_memcached_username = None cache_memcached_password = None # The tilesource cache uses the lesser of a value based on available file # handles, the memory portion, and the maximum (if not 0) cache_tilesource_memory_portion = 8 cache_tilesource_maximum = 0 # The PIL tilesource won't read images larger than the max small images size max_small_image_size = 4096 # The bioformats tilesource won't read files that end in a comma-separated # list of extensions source_bioformats_ignored_names = r'(^[!.]*|\.(jpg|jpeg|jpe|png|tif|tiff|ndpi))$'
Logging from Python¶
The log levels can be adjusted in the standard Python manner:
import logging import large_image logger = logging.getLogger('large_image') logger.setLevel(logging.CRITICAL)
Alternately, a different logger can be specified via
setConfig in the
import logging import large_image logger = logging.getLogger(__name__) large_image.config.setConfig('logger', logger) large_image.config.setConfig('logprint', logger)