This is the monolithic changelog for the 0.0, 0.1, 0.2, and 0.3 series of hgvs releases. Beginning with 0.4, changes will be recorded in release-specific files; see Change Log.

0.3 Series

0.3.7 (2015-06-23)

Client Changes

  • #233: Expose UTA’s notions of transcript similarity via the UTA data provider. See get_similar_transcripts().
  • #236: Added seqfetcher.SeqFetcher to fetch sequences from NCBI & Ensembl
  • #199: Improved installation documentation re: PostgreSQL dependency
  • #232: Migrated to major.minor versions for schemas and schema provider-client compatibility; “compatible” := (provided x == required x) ^ (provided y >= required y)
  • misc/experimental/vcf-add-hgvs: optionally generate coding variants
  • numerous doc updates

Internal and Developer Changes

  • add missing requests library to setup.py (only affected developers)
  • updated bioutils version in setup.py

0.3.6 (2015-06-02)

  • #228: IndexError when schema name is empty
  • #228: updated CHANGELOG
  • hgvs/edit.py: doc string indentation fix

0.3.5 (2015-05-19)

  • #219: remove validation requirement that ref != alt
  • #220: Do not modify cached results when building CIGAR (pkaleta)
  • #226: support schema names in db urls; standardized search_path handling; merge connection pool and single-threaded client classes
  • added AUTHORS

0.3.4 (unreleased)

0.3.3 (2014-08-28)

  • #194: fix bug when reverse complementing nucleotides parsed from unicode
  • #197: use utf-8 coding, unicode, and all py3k __future__ features in all source
  • #198: documentation improvements
  • #202: implement mutalyzer comparisons
  • #203: return HGVSParseError instead of ometa.runtime.ParseError for parsing errors
  • #205: fix “base” bias for the exact middle of an odd-length intron
  • #206: make get_tx_for_region return only transcripts with alignment data
  • added flake8 configuration
  • added regression test framework (tests/data/gcp/regression.tsv)

0.3.2 (2014-07-12)

  • #194: fix bug when reverse complementing nucleotides parsed from unicode

0.3.1 (2014-07-12)

  • #193: fix lookup table for NC_000014.8 (was .10)
  • #192: deprecated VariantMapper cache_transcripts param and replaced with always-on lru cache in uta data provider

0.3.0 (2014-06-19)

  • #103: significantly updated documentation
  • #162: provide simplified mapping interface, EasyVariantMapper
  • #171: integrate the data provider interface into hgvs, obsoleting bdi. See hgvs.dataproviders.*
  • #177: rename mapping functions to x_to_y (dropping “hgvs” prefix)
  • #180: made set_uncertain an internal method (_set_uncertain)
  • #181: renamed hgvs.hgvsmapper.HGVSMapper to hgvs.variantmapper.VariantMapper
  • #184: rename HGVSPosition.seqref to ac
  • #185: enable validator to use HDPI to fetch sequence data; mfdb now required only for genomic sequences
  • Makefile: print machine info during testing to calibrate/debug timing probs
  • moved hgvs/data to hgvs/_data to emphasize it is internal and avoid tab completion on it
  • remove unused args from VariantMapper.c_to_p()
  • replace u1/uta1 references with hdp; update docs
  • replaced bdi with hdp when referencing the data provider; tests pass
  • setup.py: removed nose-timer (appeared to cause problems with pip install)
  • standardize exception names with “HGVS” prefix
  • updated examples/manuscript-example; other minor changes

0.2 Series

0.2.2 (2014-06-12)

  • #103: significantly updated documentation
  • #142: added BIC test cases
  • #167: disable the any_variant rule because it is confusing
  • #179: added quick and extra tags to tests; updated Makefile to support make test, test-quick, test-extra; removed test_hgvs_parser_real (but kept gcp version)
  • added support for testing models (“models” attr and test-models)

0.2.1 (2014-06-11)

  • #157: don’t reverse complement numeric “sequences” (as in del26)
  • #159: Update comment in tests/data/ADRA2B-dbSNP.tsv
  • #161: transform examples to sphinx doc (+upload)
  • #167: disable the any_variant rule because it is confusing
  • #175: added type to NADupN and Copy edit classes
  • Added Important Notes section in README.rst
  • Makefile: “test” target should depend on “setup” after all
  • added example for stringification to README.rst
  • added examples/Manuscript Example.ipynb
  • added installation status (from hgvs-integration-test at travis-ci) and build status (from drone.io)
  • hgvsmapper: use deepcopy when converting edits
  • removed unused sphinx_pypi_upload.py
  • updated examples to use uta1

0.2.0 (2014-03-09)

  • updated README.rst example to use uta1; added .rst files to nosetest testing
  • added ci-test-ve; switched to hgtools 5.0 use_vcs_version in setup.py
  • take 1 on reconcililing test differences between internal jenkins and drone.io
  • removed accidental tag (!); added sphinxcontrib-fulltoc to setup.py

0.1 Series

0.1.11 (2014-03-05)

  • removed accidental tag (!); added sphinxcontrib-fulltoc to setup.py
  • updated package metadata; removed requirements.txt; tests pass

0.1.9 (2014-03-05)

  • #40: added additional tests
  • #114: add test that checks that all rules have been tested - and add tests for rules that were missed!
  • #135: add more tests; fixed and enabled tests previously commented out
  • #147: update tests to use updated sqlite test DB
  • Added U14680.1 (BIC tx) to grammar test
  • ExtrinsicValidator should not guess about bdi and mfdb sources; instead require caller to specify
  • Fixed an un-handled case for parsing AA frameshifts - short form, e.g. “Ala97fs” (no alt AA). Added tests.
  • Makefile, setup,py, setup.cfg sync with sibling projects
  • Merged hgvs_using_uta1 into default
  • Merged in extrinsic_validation (pull request #5)
  • Remove redundant test
  • added Validator class that wraps instrinsic and extrinsic validation
  • added bdi accession testing
  • added codeship status badge to README.rst, for testing
  • added creating-a-variant example
  • added sbin/get-dbsnp-tests-for-gene
  • added tests from dbSNP for 6 new gene; fixed probs with uncertainty and Terd+ in existing tests
  • bug fixes for uta1 integration; all tests pass except for sqlite db test
  • checking cigar ref tgt orientation
  • cigar intron count fix
  • cut DNAH11 tests to representative set (apx 80% cut)
  • finished integrating uta1 into hgvs and started updating tests
  • fixed DNAH11-dbSNP tests
  • fixed bug when falling off transcripts
  • hgvsmapper is updated with uta1 requirements. testing modifications using hgvs-shell
  • removed accession test from extrinsic validator (sequence lookup covers accession lookup)
  • removed codeship badge
  • renamed ~Validation to ~Validator to keep with class-as-actor naming scheme
  • starting external validation with bdi
  • testing
  • trivial change to tickle codeship build
  • updated edit type and tests to include identity for sub e.g., T>T
  • updated external validation using bdi; added identity edit type for sub T>T; added HGVSValidationException class; added sample tests for mfdb
  • updated package metadata; removed requirements.txt; tests pass
  • upped bdi min version to >=0.1.0 (interface1)
  • use pip installation status as build status since that’s what users will experience
  • working through updating TM and IM. HM g_to_c appears to work

0.1.8 (2014-01-22)

  • updated README.rst example for bdi connect()

0.1.7 (2014-01-22)

  • #106, #108: parse uncertain hgvsp/hgvsr; converter produces uncertain hgvsp.
  • #110, #111: handle cases of entire gene deletion (p.0?) and stop codon in frame (p.?). Updated tests.
  • #65, #89: can now parse Met1? and ext*N; removed extra fs parsing from delins.
  • #65: cleanup; AASub can go back to being a subclass of AARefAlt
  • #65: def_p_pos needs to accept term13 as well as aa13 for ext; tests updated.
  • #65: fixed an ordering bug; added tests.
  • #65: fs/ext are now their own pro_edit types; they correspond to their own class objects. 5’ extensions and 3’ extensions can be parsed. Tests updated.
  • #65: should be stringifying * as Ter; fixed code in 2 lines & tests in many.
  • #65: tighten ext rules; require a number for new start positions.
  • #90: added dup in hgvsmapper; allowed rev complement util to handle None (was triggering exceptions); added tests for dup.
  • #91: add extension support for parsing copyN and DupN
  • #91: make adding default totally extendable by allowing additional imports for the base grammar (default empty list)
  • #91: simplest implementation of parsing copyN, dupN - added directly to grammar (no extension)
  • #99: fix aa13t parsing
  • #99: fix aa13t parsing, take 2; tests pass (including G* test)
  • #99: re-enable tests related to this issue.
  • Fixed a bug where del5insT was getting stringified as “5>T”
  • added datum to range checking
  • added datum to range checking
  • added edit type as a property to the edit object; updated tests; added examples to hgvs-shell
  • added edit type as a property to the edit object; updated tests; added examples to hgvs-shell
  • close anonymous branch
  • closed experimental dev branch
  • closed hgvsvalidator feature branch on wrong default branch (grafted to default)
  • doc updates and Makefile fix after fouled merge
  • fixed minor doc typos
  • hgvsc_to_hgvsp - ac defaults to None; seems better than forcing the user to pass ‘None’ as a param if they want the protein accession looked up.
  • iv grammar branch
  • make doc is broken & not used; removing it from make ci-test for now.
  • merged in validator (pull request #4)
  • minor change to rebase
  • removed links section from README
  • renamed hgvsvalidator to validator and corresponding test; corrected start-end check added tests
  • revised intrinsic validator and tests; deleted requests from setup.py
  • updated README.rst example for bdi connect()
  • updated docs to point back to pythonhosted
  • updated installation.rst
  • updated ipython notebook examples
  • updated railroad building
  • updated railroad in docs
  • updated the fragile railroad building again

0.1.6 (2014-01-11)

  • updated docs to point back to pythonhosted
  • added setuptools to requirements.txt
  • updated requirements.txt
  • fixed bug in setup.py re: classifiers

0.1.5 (2014-01-11)

  • fixed bug in setup.py re: classifiers

0.1.4 (2014-01-11)

  • #97: a bagillion doc updates; branch closed

0.1.3 (2014-01-11)

  • #60: 1st stab at grammar tests from the bottom-up (through locations/definite positions). (See header in test_hgvs_grammar_full.py for details.) Also added a few error checking tests.
  • #60: drop None from SequenceVariant (use case - only parsing an edit); grammar update for offset
  • #60: implement cleanup; distributed remaining items to separate issues.
  • #73: migrate hgvs to bdi-based protein accession lookup
  • #90: fixed typo for delins and ins for parsing hgvsp
  • #92: add a subclass of AARefAlt (AASub) which overrides __str__ to get the representation right; grammar update
  • #92: fix error in NARefAlt
  • #93: added variant liftover for HGVS projector, with tests
  • #93: implemented HGVS projector for interval liftover
  • #96: cleanup and test update
  • #96: deleting tests/data
  • #96: fix file
  • #96: name cleanup
  • #96: removed nightly test target
  • #96: short set of real data for gcp parsing
  • #97: a bagillion doc updates; branch closed
  • #97: major doc restructuring, cleanup, additions
  • A few more basic tests
  • Add parser test which just tries to parse all the cvids (g, c and p) - currently skips unsupported forms. Also tweaked the r variants in the all cvid file (T should be U).
  • Add some basic intervalmapper tests based on the coverage results
  • Fill in more protein edit tests
  • Fixed a bug breaking n_edit and m_edit; updated tests.
  • Make documentation more Sphinx-friendly
  • More grammar tests; simplified dup check for hgvsc to p conversion
  • Tweak HGVSp expected so an edit creating a stop codon is represented by Ter instead of * (to match hgvs string code)
  • add alternative UTA_DB_URL options to Makefile; cleanup eggs in cleanest (not cleaner) and bdist et al. in cleaner (not cleanest)
  • added .travis.yml
  • added a projector example
  • added classifiers and keywords to setup.py
  • added license to docs
  • added railroad diagram to docs
  • additional grammar tests - HGVS edits are failing commented out for now
  • bug fix: make test was running nightly tests
  • build reST doc for railroad grammar
  • code cleanup
  • commenting out test until I am in a place where I can run it
  • doc updates
  • eliminated most sphinx warnings
  • lots of doc restructuring and consolidation
  • minor cleanup
  • more grammar tests
  • removed reST examples
  • sync default into branch
  • sync default into dev
  • updated README with pypi info
  • updated installation
  • updated misc/hgvs-shell for new bdi.uta0.connect()
  • updated railroad diagram to include version number
  • updated sphinx doc/source/conf.py
  • yet more doc changes

0.1.2 (2014-01-05)

  • #85: adapted hgvs to bdi with runtime-selectable UTA connections
  • updated README with pypi info
  • doc updates
  • now depend on uta and bdi from PyPI (not dependency_links); sync’d Makefile and setup.py with uta; updated test and docs targets

0.1.1 (2014-01-03)

  • #64: handle the following: (1) indel crosses stop codon; (2) indel crosses start codon; need to retest on full suite
  • #64: update 4 tests to reflect p.Met1? behavior for deletions crossing from 5’utr to cds:
  • #83: cleanup fs* cases where mutalyzer assigns fs*N where N = end of transcript instead of an actual stop codon (expected result is now fs*?)
  • #83: comment out tests that need review/cleanup (and added comment); fixed tests where expected result was incorrect (still need to check tests w/ no expected result)
  • #83: fill in intronic variants with expected hgvsp results (p.?) per curators
  • #84: ext with no stop codons are represented as ext*? - updated tests accordingly
  • #84: fix expected result
  • Turn off dbg
  • Turn off more dbg
  • added lots of documentation
  • added Apache license and code boilerplate to all source files and scripts
  • doc updates
  • fix coverage by calling tests via python setup.py nosetest; fix test name
  • logo: rotated, moved to subdir, created favicon
  • made png and ico logos transparent
  • moved sphinx sources to doc/source and updated configs
  • now depend on uta and bdi from PyPI (not dependency_links); sync’d Makefile and setup.py with uta; updated test and docs targets
  • removed test-setup-coverage from Makefile dependencies (put in setup.py instead)
  • s/locusdevelopment/invitae/
  • updated doc static images
  • updated hgvs-logo.png per Makefile
  • updated setup.py “license” attribute
  • vastly improved sphinx documentation. More to do

0.1.0 (2013-12-30)

  • #52: generate syntax/railroad diagrams (in misc/railroad/)
  • #56: updated tests; fixed fs*N (only one still broken)
  • #62: synchronized setup files among UTA program components
  • #66: added support for p.0, p.=, p.?, p.(=), p.(?), with tests
  • #66: updated grammar for p.0, p.=, p.?, p.(=), p.(?) to reject invalid p.(0), etc.
  • #72: update hgvs to use bdi (no direct connections to uta anymore)
  • Close branch jenkins.
  • Convert test input and consumer to use 4-column format
  • Fix extension for frameshift case; update test to get around dupN (trim the N)
  • Fix tag
  • Last cleanup before merge
  • README.rst: fixed preformatted text (that wasn’t)
  • Refactored cp tests to work from a common base which more closely resembles the gcp test. All-CVID test input file is in 4-column format (lots of missing data, though)
  • Revamp of c to p based on tests results; checkpoint. Sanity & EH tests all run.
  • Update makefile to include a mechanism for generating code coverage during tests
  • Updated Makefile test task to skip tests prefixed with test_nightly; added task to run all; enabled all cvid test to check this
  • add missing files to package_data
  • added Apache license and code boilerplate to all source files and scripts
  • added architecture & dependency info to README.rst
  • added comments to failed and broken tests
  • added examples directory
  • added sbin/test-runner (see script header for example)
  • added setuptools>2.0 to setup.py (testing); updated README.rst
  • close branch
  • corrected minor README typo
  • fix test
  • fixed bug in reported AA edit for extensions
  • fixed bug introduced in 63e0baf7c986; removed unnecessary and obsolete edti.interface import in tests/framework/mock_input_source.py
  • fixed bug that caused protein accession to be not looked up when not specified
  • fixed bug with unqualified class names in hgvs.pymeta
  • hgvsc to hgvsp bug fixes/updates: changed del/dups to represent the c-terminal end; variants in utr, intron & 1st AA are treated as p.? (subject to review). Cleaned up test data. Tweaked seguid data so the tests pick up the correct NP in a case where there’s more than one match - mainly just to get the tests to pass.
  • hgvsc to p takes an accession
  • make the nightly start from make cleanest (tougher)
  • merge into default
  • more README and setup.py updates
  • move edti bits to bdi
  • moved misc/hgvs-shell to sbin
  • setup.py: testing yet another dependency_links format
  • updated README.rst
  • updated bdi and tests to use external UTA instance
  • updated examples dir
  • updated logo and README

0.0 Series

0.0.9 (2013-12-16)

  • added comments to failed and broken tests
  • renamed grammars to .pymeta
  • consolidated g-c-p testing into a single test file; commented out putatively broken tests; DNAH11 works!
  • add forgotten sbin/fasta-seguid for commit -2 (0d29d0ea2d42)
  • fixed minor grammar bugs re: AA term and frameshift
  • added accession lookup for all of RefSeq protein
  • got ‘make jenkins’ target working
  • harmonized with UTA Makefile and setup.py to try to get tests working
  • added biopython to setup.py
  • fixed pro_eq grammar bug mentioned in #42
  • Updated DNAH11 and NEFL tests. They run, so I’ll mark as complete, but there are errors associated with the proteins
  • hgvsc_to_hgvsp: Fixed a delins bug
  • hgvsc_to_hgvsp: Fixed bug in insertion indexing; improved exception handing
  • added misc/hgvs-shell to simplify manual testing
  • hgvs tests for DNAH11 and NEFL -> note protein not currently working just change if statement
  • initial checkin for jenkins branch; want to test this in the build context
  • Close branch c_to_p
  • Merged in c_to_p (pull request #3)
  • Incorporate AASpecial; tests pass.
  • merge from default
  • merged default into c_to_p
  • added AASpecial to handle p.=, p.?, p.0 (and parenthesized versions)
  • fixed setup.py issue that caused omission of hgvs.utils on install
  • Forgot to add a test file to mercurial
  • Merged from default; fixed a test.
  • Make test file name more consistent
  • SImplified comparison in the event of a simple substitution; updated tests so the failed tests are commented out.
  • Reformatted Emily’s test data to make it more consumer-friendly; continuous test tweaking - latest checkpoint.
  • Another couple of fixes based on EH tests; checking in working version of the tests.
  • updated hgvsmapper with all g<->r<->c transformations
  • remove explicit class references from makeGrammar invocation, require fully-qualified class name in hgvs.ometa
  • close uncertainty branch
  • added chr_to_NC in utils, added c_to_g in hgvsmapper
  • Name cleanup for tests
  • Tests now play nicely with both real data and the mock data.
  • Add call to get_tx_seq()
  • Missed a rename in the tests.
  • Rename test classes to be a bit more consistent with their use.
  • Inserted hgvsc_to_hgvsp into hgvsmapper.
  • merge from default
  • align with developer.rst conventions on naming hgvs variants vs. strings
  • Fix tests to run in makefile context; some more documentation
  • revamped hgvs_c_to_p so its interface matches hgvsmapper; should make incorporation a simple matter of copying the hgvsc_to_hgvsp method in. Updated tests accordingly. Moved tests to top-level.
  • Merge from default
  • Re-arranging code for utils/staging for hgvs mapper.
  • Purged debug code
  • Ack - last checkin broke the tests; fixed accession setup
  • format cleanup
  • Incorporate stopgap for protein accession; refactor so interface consumes data in the current UTA format; refactor tests to mimic UTA input; getting actual seq is still a placeholder.
  • merging default into c_to_p
  • added location uncertainty (parsing, representation, formatting, testing)
  • added multifastadb code and tests
  • [mq]: hgvsmapper-work
  • imported patch hgvs-utils-dir
  • added multifastadb tool and tests
  • added Rudy’s AA p.= rule
  • [mq]: grammar-relo
  • added hgvs.stopgap
  • Close branch transcriptmapper
  • Merged in transcriptmapper (pull request #2)
  • added TODO for tracking, prior to merging pull request
  • Basic handling of variants in non-coding regions; will return p.= in all cases; this does not handle the case where a 5’utr variant results in the creation of an upstream Met.
  • merged with default, TM bug fixes and more tests
  • cleanup names (or at least make them a little more descriptive)
  • added tm.cds_start_i in place of hard coding cds
  • refactoring
  • Roll back exon-specific changes and assume input is entire transcript concatenated together; retain the transcript data as recordtype
  • fix test for AA in 2nd exon
  • Convert transcript data object to recordtype; add tests for multi-exon (in progress)
  • more tests
  • additional TM fixes and more tests with multiple exons and strands
  • Account for transcripts w/ more than 1 exon (test input assumed one)
  • added some 1-exon tests
  • Incorporate aa util and extend interval class (for test data); convert code to produce SequenceVariant objects for hgvs c to p. Also hacked in a way to handle p.= into the grammar (should be reviewed before merge).
  • bug fixes
  • Merged default into c_to_p
  • added enum to transcriptmapper tests
  • Last cleanup before merging default into here
  • all input/output is hgvs-based. updated tests accordingly
  • Close branch protein-variants
  • Merged in protein-variants (pull request #1)
  • hgvs.edit: fixed and improved fs handling, and added mediocre tests
  • hgvs.utils: added Xaa=X, Ter=*, Sec=U for aa1-to-aa3 & aa3-to-aa1 translation
  • code cleaning
  • finished tests for transcriptmapper
  • finished all the g,r,c conversions adding more tests
  • More cleanup; simplify variant inserter code
  • updated transcriptmapper to support g->r, r->g, r->c and appropriate tests
  • minor cleanup
  • variant insert tests
  • merged edti-uta0 branch
  • closing branch prior to merge
  • edti: added __metaclass__ to edti.interface; added fetch_gene_info to uta0
  • hgvs.edti: EDTI base interface and UTA0 implementation milestone
  • hgvs.parser: add function attributes for every rule to enable, e.g., Parser.parse_c_interval(...)
  • implemented p. parsing and formatting, with tests
  • hgvs.utils: handle case when aa string is None
  • hgvs.utils: added aa_to_aa{1,3} functions to coerce to 1- or 3-letter amino acids
  • hgvs.utils: added protein 1-letter and 3-letter conversion
  • Checkpoint for new branch (hgvs c to p)
  • branched transcriptmapper
  • improved parsing of hgvs_position rules (i.e., without edits) to handle g,m,n,r,c,p types distinctly
  • added {gmn,c,r,p}_edit rule to parse variants without accesssions (e.g., c.76A>T)
  • renamed DelIns class to RefAlt
  • renamed Variant to SequenceVariant, and instance variant seqref to ac
  • closed abandoned protein-support branch
  • updated parser tests to include aspirational and “reject” tests
  • [mq]: import-location-changes
  • [mq]: import
  • hgvs.location: renamed location classes; added BaseOffset position for r. and c.; removed predicate methods (is_exonic, etc);
  • incomplete, buggy milestone
  • setup.py: use full path for doc/description.rst
  • updated CDSPosition to include datum and added tests
  • use get_distribution() rather than require() to fetch version
  • Fix for pathing to grammar.txt from within hgvs.parser.Parser
  • modified setup.py to zipsafe false
  • TODO edited online with Bitbucket
  • Making setup.py file pathing absolute
  • Fix for setup.py
  • updated Makefile and setup.py
  • revert directory to current after upload
  • fixed bug in HGVSPosition.__str__ and added HGVSPosition test

0.0.7 (2013-10-11)

  • fixed bug in HGVSPosition.__str__ and added HGVSPosition test
  • collapsed grammar cases for c_pos; fixed variant test case typo

0.0.6 (2013-10-11)

  • collapsed grammar cases for c_pos; fixed variant test case typo
  • updated docs; fixed typo in variant

0.0.5 (2013-10-11)

  • updated docs; fixed typo in variant
  • added HGVSPosition (aka HGVS Lite)

0.0.4 (2013-10-11)

  • added HGVSPosition (aka HGVS Lite)
  • “simple” (single site) variants now pass tests
  • update hgvs.__init__ and sphinx to use version from hgtools

0.0.3 (2013-10-10)

  • update hgvs.__init__ and sphinx to use version from hgtools
  • removed home-grown hg versioning in favor of hgtools
  • removed virtualenv support and cleaned up Makefile
  • milestone sync; c, gmn, and r types mostly work; some tests broken
  • updated variant and added test
  • updated grammar (more to do) and tests
  • added hgvs.posedit and tests
  • updated hgvs.edit
  • removed CDSInterval (will use Interval for all intervals)
  • fixed typo
  • update hgvs.location and tests
  • minor setup.py changes

0.0.2 (2013-09-20)

  • minor setup.py changes
  • grammar simplification; added Laros grammar, examples, comments
  • Reverted Lawrence’s changes to edit.py (after discussing with him).
  • Adding some convenience properties to be used in Geneticus.
  • updated grammar; added README.rst
  • added missing deps to setup.py; switched to plain ole distutils
  • added developer notes, logo, sphinx config

0.0.1 (2014-08-01)

  • initial commit