Re: [Biopython] [ext] Re: A possibility for speeding up FASTA/FASTQ reading in BioPython
"Jones Kelly, Terence Carleton" <[email protected]> Tue, 25 Nov 2025 19:56:46 +0000
| Newsgroups | gmane.comp.python.bio.general |
|---|---|
| Message-ID | <[email protected]> |
--===============8359502673403356115== Content-Language: en-US Content-Type: multipart/alternative; boundary="_000_5b4705cef7194d299e17295c627e8ce5charitede_" --_000_5b4705cef7194d299e17295c627e8ce5charitede_ Content-Type: text/plain; charset="utf-8" Content-Transfer-Encoding: base64 SGkgYWxsDQoNClRoYW5rcyBmb3IgdGhlIHJlcGxpZXMgYW5kIEknbSBzb3JyeSB0byBiZSBzbyBz bG93IGluIHJlcGx5aW5nLg0KDQpQZXRlciAtIEnigJltIHNjZXB0aWNhbCwgdG9vLiAgSSB0aG91 Z2h0IGl0IGhpZ2hseSB1bmxpa2VseSB0aGF0IEJpb1B5dGhvbiB3b3VsZCB3YW50IHRvIGFkZCBh IGRlcGVuZGVuY2Ugb24gUnVzdC4gVGhlIEMgY29kZSBjb3VsZCBiZSB1c2VkIHRvIGdldCB0aGUg c2FtZSBzcGVlZC11cC4gVGhlIGF1dG9tYXRpYyBkZXRlY3Rpb24gb2YgY29tcHJlc3NlZCBpbnB1 dCAoaW5jbHVkaW5nIG9uIHN0ZGluKSB3b3VsZCBiZSBsb3N0LCBidXQgcGVyaGFwcyBjb3VsZCBi ZSBhZGRlZC4gIERhbiAtIG1heWJlIENsYXVkZSBjb3VsZCBtYWtlIHRoZSBjaGFuZ2VzIGZvciBh IHByLiBJIHdvdWxkbuKAmXQgYmUgc3VycHJpc2VkLCBldmVuIHdpdGggc3VjaCBhIGxhcmdlIGNv ZGViYXNlLg0KDQpSZWdhcmRpbmcgdGhlIHdpZGVyIHBvaW50cyBtYWRlIGJ5IFBldGVyIGluIGhp cyBibG9nIHBvc3QsIEkgYWdyZWUgd2l0aCBwcm9iYWJseSBhbGwgb2YgaXQuIEkgaGlnaGx5IGRv dWJ0IHRoYXQgdGhlIGN1cnJlbnQgdHJhamVjdG9yeSAoaW4gdGVybXMgb2YgZW5lcmd5IHVzZSkg b2YgdGhlc2UgdG9vbHMgaXMgc3VzdGFpbmFibGUsIGFuZCBJIHJlZ3VsYXJseSB3b25kZXIgYWJv dXQgYWN0dWFsIGNvc3QgKHRvIHRoZSBwbGFuZXQpIEkgYW0gaW5jdXJyaW5nIHdoZW4gdXNpbmcg Q2xhdWRlLCBlc3BlY2lhbGx5IHdoZW4gaXTigJlzIGRvaW5nIHNvbWV0aGluZyBJIGNvdWxkIGRv IGluIGVtYWNzIG9yIHdpdGggZS5nLiwgYSBwZXJsIG9uZS1saW5lci4gQnV0IEkgZ2V0IHN0dWZm IGRvbmUgYWJvdXQgMjB4IGFzIGZhc3Qgd2hlbiB1c2luZyBDbGF1ZGUsIGFuZCBJIGp1c3Qgc3Bl YWsgdG8gaXQgKHVzaW5nIERpY3RhdGlvbiBvbiBPUyBYKSwgYmFyZWx5IHR5cGluZyBhIHRoaW5n LiBUaGF04oCZcyBhbGwgYW4gaW5jcmVkaWJsZSBjaGFuZ2UgYWZ0ZXIgNDArIHllYXJzIG9mIGhh dmluZyB0byBnZXQgdGhvdWdodHMgb3V0IG9mIG15IGJyYWluIGFuZCBpbnRvIHRoZSBjb21wdXRl ciBvbmUga2V5c3Ryb2tlIGF0IGEgdGltZS4gSXQgZmVlbHMgbGlrZSBtYWdpYy4gQlVULCBJIGhh dmUgdG8gd2F0Y2ggQ2xhdWRlIHZlcnkgY2FyZWZ1bGx5LCBsb29rIGF0IGl0cyBjb2RlLCBtYWtl IGl0IHdyaXRlIG1hbnkgdGVzdHMgYW5kIGV4cGxpY2l0bHkgcHJvdmUgdGhhdCBpdCBoYXMgbWFu YWdlZCB0byBkbyB3aGF0IHdhcyBpbnRlbmRlZC4gVGhhdOKAmXMgbm90IHNvIGRpZmZlcmVudCBm cm9tIHdhdGNoaW5nIHlvdXJzZWxmIG9yIGRvaW5nIGNvZGUgcmV2aWV3IG9mIGEganVuaW9yICh2 ZXJ5IGVuZXJnZXRpYyBldmVyLWNoZWVyZnVsKSBwcm9ncmFtbWVyLg0KDQpJIGFncmVlIHRoYXQg YW4gQUkgKENsYXVkZSwgY2VydGFpbmx5KSBjb3VsZCBiZSB1c2VkIHRvIHZlcnkgcXVpY2tseSBt YWtlIGdlbmVyYWwgaW1wcm92ZW1lbnRzIHRvIGEgY29kZWJhc2Ugd2l0aCB2ZXJ5IGxpdHRsZSBy aXNrIChhc3N1bWluZyBhIHRlc3Qgc3VpdGUgZXhpc3RzKS4gSeKAmXZlIGRvbmUgdGhhdCBxdWl0 ZSBhIGZldyB0aW1lcywgZS5nLiwgdGVsbGluZyBDbGF1ZGUgSSBubyBsb25nZXIgbmVlZCBzdXBw b3J0IGZvciBQeXRob24gMy5YIGFuZCB0byBtb2Rlcm5pc2UgdGhlIHR5cGluZyBoaW50cyBmb3Ig My5YKzEsIG9yIHRvIGFkZCB0eXBpbmcgaGludHMsIGV0Yy4gIEl04oCZcyBhbHNvIGdvb2QgYXQg cHJvZHVjaW5nIGRvY3VtZW50YXRpb24uDQoNCknigJltIG5vdCBzdXJlIHdoZXJlIHRoaXMgbGVh dmVzIHVzLiAgSWYgdGhlcmXigJlzIGFncmVlbWVudCB0aGF0IGEgQyBleHRlbnNpb24gd291bGQg YmUgZ29vZCB0byBoYXZlLCB0aGUgb25lIENsYXVkZSBtYWRlIGZvciBteSBwcnNlcSBwcm9qZWN0 IGJlbmNobWFyayBzdWl0ZSBpcyB0ZXN0ZWQgYW5kIGNvdWxkIGJlIHVzZWQuIEkgaGF2ZW7igJl0 IGxvb2tlZCBhdCB0aGUgQmlvUHl0aG9uIGNvZGUgY2xvc2VseSBlbm91Z2ggdG8ga25vdyBob3cg bXVjaCB3b3JrIHRoYXQgd291bGQgYmUsIHRob3VnaC4NCg0KVGhhbmtzIGFnYWluIGZvciB0aGUg dGhvdWdodGZ1bCByZXBsaWVzLiBUaGVyZSB3YXMgYW4gZWFybGllciBvbmUgYXNraW5nIHdoeSB0 aGUgQmlvUHl0aG9uIGNvZGUgd2FzIHNsb3dlciB0aGFuIENsYXVkZeKAmXMgbWluaW1hbCBwdXJl IFB5dGhvbiwgYW5kIHN1Z2dlc3RpbmcgdGhhdCB3b3VsZCBiZSBkdWUgdG8gdGhlIG92ZXJoZWFk IG9mIG1ha2luZyBTZXFSZWNvcmRzLiBJIHRoaW5rIHRoYXQgbXVzdCBiZSB0aGUgY2FzZS4gVGhl IGltcGFjdCBpcyBtdWNoIG1vcmUgc2V2ZXJlIHdpdGggRkFTVFEgdGhhbiBGQVNUQSwgc28gSSBn dWVzcyBkZWFsaW5nIHdpdGggdGhlIHF1YWxpdHkgc3RyaW5ncyBtdXN0IGJlIHF1aXRlIGV4cGVu c2l2ZS4NCg0KQmVzdCwNClRlcnJ5DQoNCkZyb206IFBldGVyIENvY2sgPHAuai5hLmNvY2tAZ29v Z2xlbWFpbC5jb20+DQpEYXRlOiBNb25kYXksIDI0LiBOb3ZlbWJlciAyMDI1IGF0IDEwOjQxDQpU bzogSm9uZXMgS2VsbHksIFRlcmVuY2UgQ2FybGV0b24gPHRlcmVuY2Uuam9uZXNAY2hhcml0ZS5k ZT4NCkNjOiBiaW9weXRob25AYmlvcHl0aG9uLm9yZyA8YmlvcHl0aG9uQGJpb3B5dGhvbi5vcmc+ DQpTdWJqZWN0OiBbZXh0XSBSZTogW0Jpb3B5dGhvbl0gQSBwb3NzaWJpbGl0eSBmb3Igc3BlZWRp bmcgdXAgRkFTVEEvRkFTVFEgcmVhZGluZyBpbiBCaW9QeXRob24NCg0KSGVsbG8gVGVycnksDQoN CkkganVzdCBwb3N0ZWQgYSBibG9nIGFib3V0IG15IHRob3VnaHRzIG9uIHJlY2VpdmluZyBnZW5l cmF0aXZlIEFJDQpjb250cmlidXRpb25zIGFzIGFuIE9wZW4gU291cmNlIHByb2plY3QgbWFpbnRh aW5lcjoNCg0KaHR0cHM6Ly9ibGFzdGVkYmlvLmJsb2dzcG90LmNvbS8yMDI1LzExL3Rob3VnaHRz LW9uLWdlbmVyYXRpdmUtYWktY29udHJpYnV0aW9ucy5odG1sDQoNCkkgYW0gc2NlcHRpY2FsLCBh bmQgaW4gdGhpcyBjYXNlIGFkZGluZyBhIFJ1c3QgZGVwZW5kZW5jeSB0byBCaW9weXRob24NCnNl ZW1zIHRvbyBtdWNoIHRvIGFzay4gSSB0aGluayB5b3UgY291bGQgZ2V0IHNpbWlsYXIgcGVyZm9y bWFuY2UgZ2FpbnMNCndpdGggQyAod2hpY2ggd2UgZG8gdXNlKSB3aGVyZSBhdCBsZWFzdCB0aGUg bWFpbnRhaW5lcnMgaGF2ZSBzb21lDQpleHBlcmllbmNlLiBIb3dldmVyLCBldmVuIHRoZXJlLCBn YWlucyBtYXkgbm90IG1ha2UgdGhlIGFkZGl0aW9uYWwNCmNvbXBsZXhpdHkgYW5kIG1haW50ZW5h bmNlIGJ1cmRlbiB3b3J0aHdoaWxlLg0KDQpUaGFuayB5b3UgZm9yIHdyaXR0aW5nIGFuZCBhc2tp bmcsIHJhdGhlciB0aGFuIHN1cHJpc2luZyBldmVyeW9uZSB3aXRoDQphIGxhcmdlIHB1bGwgcmVx dWVzdC4NCg0KUGV0ZXINCg0KUC5TLiBDcm9zcyByZWZlcmVuY2UgaHR0cHM6Ly9naXRodWIuY29t L2Jpb3B5dGhvbi9iaW9weXRob24vcHVsbC81MDg1DQoNCk9uIFR1ZSwgTm92IDExLCAyMDI1IGF0 IDEwOjAw4oCvUE0gSm9uZXMgS2VsbHksIFRlcmVuY2UgQ2FybGV0b24NCjx0ZXJlbmNlLmpvbmVz QGNoYXJpdGUuZGU+IHdyb3RlOg0KPg0KPiBIaSBhbGwNCj4NCj4gSSByZWd1bGFybHkgcHJvY2Vz cyByZWFzb25hYmx5IGxhcmdlIEZBU1RRIChodW5kcmVkcyBvZiBiaWxsaW9ucyBvZiBzZXF1ZW5j aW5nIHJlYWRzKSBhbmQgRkFTVEEgZmlsZXMgdXNpbmcgQmlvUHl0aG9uLiBGb3Igc29tZSB5ZWFy cyBJJ3ZlIGJlZW4gbWVhbmluZyB0byBpbXBsZW1lbnQgYSBGQVNUUS9GQVNUQSByZWFkZXIgaW4g YSBjb21waWxlZCBsYW5ndWFnZSBhbmQgYWRkIFB5dGhvbiBiaW5kaW5ncyB0byBpbXByb3ZlIHRo ZSBzcGVlZC4gSSBjb3VsZCd2ZSBkb25lIHRoaXMgaW4gQyBidXQgSSBzcGVudCBzb21lIGRlY2Fk ZXMgd3JpdGluZyBDIGFuZCBJIHdhbnRlZCB0byBsZWFybiBzb21ldGhpbmcgbmV3LCBzbyBJIGNv bnNpZGVyZWQgYSBmZXcgbGFuZ3VhZ2VzLiBCZWNhdXNlIFJ1c3QgbWFrZXMgaXQgdmVyeSBlYXN5 IHRvIGNyZWF0ZSBQeXRob24gYmluZGluZ3MsIEkgZGVjaWRlZCB0byBnaXZlIGl0IGEgdHJ5LiBJ IHRob3VnaHQgSSdkIGdldCBnb2luZyBieSBhc2tpbmcgdGhlIENsYXVkZSBDTEkgdG8gd3JpdGUg bWUgc29tZSBSdXN0LiBUaGF0IHR1cm5lZCBvdXQgdG8gYmUgYSBtdWNoLCBtdWNoIGJldHRlciBl eHBlcmllbmNlIHRoYW4gSSBoYWQgYW50aWNpcGF0ZWQuIFdpdGggQ2xhdWRlIEkgcGxheWVkIHdp dGggc2V2ZXJhbCBpbXBsZW1lbnRhdGlvbnMsIGtlZXBpbmcgdHJhY2sgb2YgdGltaW5nLiBDbGF1 ZGUgYWxzbyB3cm90ZSBzb21lIHRlc3RzLiBUbyBjb21wYXJlIHdoYXQgSSB3YXMgc2VlaW5nIEkg Z290IENsYXVkZSB0byB3cml0ZSBhIHB1cmUgUHl0aG9uIHZlcnNpb24sIGEgcHVyZSBDIHZlcnNp b24sIFB5dGhvbiBiaW5kaW5ncyB0byB0aGUgQywgYW5kIHRvIGNyZWF0ZSBhIGJlbmNobWFyayBz dWl0ZS4gRnJvbSB3aGF0IEkgY2FuIHRlbGwsIHRoZSBSdXN0L1B5dGhvbiAoYW5kIHRoZSBDL1B5 dGhvbikgRkFTVEEgcmVhZGluZyBpcyB0d2ljZSBhcyBmYXN0IGFzIEJpb1B5dGhvbiBhbmQgRkFT VFEgcmVhZGluZyBpcyBmb3VyIHRpbWVzIGFzIGZhc3QuIEkgZGlkbid0IHdyaXRlIGEgc2luZ2xl IGxpbmUgb2YgY29kZS4gSSBqdXN0IGRpZCBzb21lIG1pbmltYWwgY2xlYW5pbmcgdXAgd2hlbiB0 aGluZ3Mgd2VyZSBhbHJlYWR5IGZhciBhbG9uZy4gSSd2ZSBiZWVuIHVzaW5nIHRoZSBjb2RlIGZv ciB0aGUgbGFzdCBtb250aCBvciB0d28gd2l0aCBubyBwcm9ibGVtcy4NCj4NCj4gVGhlIHJlcG8g aXMgYXQgaHR0cHM6Ly9naXRodWIuY29tL1Zpcm9sb2d5Q2hhcml0ZS9wcnNlcSAgKHByc2VxID0g UHl0aG9uL1J1c3QgZm9yIHNlcXVlbmNlcykuIFlvdSdsbCBmaW5kIHRoZSBiZW5jaG1hcmsgcmVz dWx0cyBvbiB0aGF0IHBhZ2UuICBUaGVyZSBhcmUgc3RpbGwgc29tZSBzbWFsbCB0aGluZ3MgSSB3 b3VsZCBhZGp1c3QgaW4gdGhlIEFQSS4gIEJUVywgQ2xhdWRlIGFsc28gd3JvdGUgdGhlIFJFQURN RSAod2hpY2ggc2hvdWxkIGRlZmluaXRlbHkgYmUgaW1wcm92ZWQpLg0KPg0KPiBJIGFtIHdvbmRl cmluZyBpZiB0aGVyZSBtaWdodCBiZSBpbnRlcmVzdCBpbiBpbmNvcnBvcmF0aW5nIHRoaXMgaW50 byBCaW9QeXRob24uIEkgZG9uJ3Qga25vdyBpZiB0aGVyZSBhcmUgYW55IFJ1c3QgZGVwZW5kZW5j aWVzIGluIEJpb1B5dGhvbiBidXQgSSBrbm93IHRoYXQgdGhlcmUgYXJlIHNvbWUgQyBleHRlbnNp b25zLiBXZSBjb3VsZCB1c2UgZWl0aGVyLCBhcyB0aGVpciBzcGVlZHMgYXJlIGNvbXBhcmFibGUu IElmIHRoZXJlJ3MgaW50ZXJlc3QsIEknZCBiZSBoYXBweSB0byBoZWxwIChvciB0byBkbyBpdCBh bGwsIGFmdGVyIHNvbWUgZGlzY3Vzc2lvbiBhbmQgbWF5YmUgd2l0aCBzb21lIGd1aWRhbmNlKS4N Cj4NCj4gVGhhbmtzIHZlcnkgbXVjaCBmb3IgYWxsIHRoZSB3b3JrIG9uIEJpb1B5dGhvbi4gSXQn cyByZWFsbHkgYmVlbiBhIHBsZWFzdXJlIHRvIHVzZSB0aGUgY29kZSBvdmVyIHRoZSBsYXN0IGRv emVuIHllYXJzIG9yIHNvLg0KPg0KPiBUZXJyeSBKb25lcw0KPg0KPg0KPiBfX19fX19fX19fX19f X19fX19fX19fX19fX19fX19fX19fX19fX19fX19fX19fXw0KPiBCaW9weXRob24gbWFpbGluZyBs aXN0ICAtICBCaW9weXRob25AYmlvcHl0aG9uLm9yZw0KPiBodHRwczovL21haWxtYW4ub3Blbi1i aW8ub3JnL21haWxtYW4vbGlzdGluZm8vYmlvcHl0aG9uDQo= --_000_5b4705cef7194d299e17295c627e8ce5charitede_ Content-Type: text/html; charset="utf-8" Content-Transfer-Encoding: base64 PGh0bWw+DQo8aGVhZD4NCjxtZXRhIGh0dHAtZXF1aXY9IkNvbnRlbnQtVHlwZSIgY29udGVudD0i dGV4dC9odG1sOyBjaGFyc2V0PXV0Zi04Ij4NCjwvaGVhZD4NCjxib2R5Pg0KPGRpdiBkaXI9Imx0 ciIgc3R5bGU9ImZvbnQtZmFtaWx5OiBBcHRvcywgQXJpYWwsIEhlbHZldGljYSwgc2Fucy1zZXJp ZjsgZm9udC1zaXplOiAxMnB0OyBjb2xvcjogcmdiKDAsIDAsIDApOyI+DQpIaSBhbGw8L2Rpdj4N CjxkaXYgZGlyPSJsdHIiIHN0eWxlPSJmb250LWZhbWlseTogQXB0b3MsIEFyaWFsLCBIZWx2ZXRp Y2EsIHNhbnMtc2VyaWY7IGZvbnQtc2l6ZTogMTJwdDsgY29sb3I6IHJnYigwLCAwLCAwKTsiPg0K PGJyPg0KPC9kaXY+DQo8ZGl2IGRpcj0ibHRyIiBzdHlsZT0iZm9udC1mYW1pbHk6IEFwdG9zLCBB cmlhbCwgSGVsdmV0aWNhLCBzYW5zLXNlcmlmOyBmb250LXNpemU6IDEycHQ7IGNvbG9yOiByZ2Io MCwgMCwgMCk7Ij4NClRoYW5rcyBmb3IgdGhlIHJlcGxpZXMgYW5kIEknbSBzb3JyeSB0byBiZSBz byBzbG93IGluIHJlcGx5aW5nLjwvZGl2Pg0KPGRpdiBkaXI9Imx0ciIgc3R5bGU9ImZvbnQtZmFt aWx5OiBBcHRvcywgQXJpYWwsIEhlbHZldGljYSwgc2Fucy1zZXJpZjsgZm9udC1zaXplOiAxMnB0 OyBjb2xvcjogcmdiKDAsIDAsIDApOyI+DQo8YnI+DQo8L2Rpdj4NCjxkaXYgZGlyPSJsdHIiIHN0 eWxlPSJmb250LWZhbWlseTogQXB0b3MsIEFyaWFsLCBIZWx2ZXRpY2EsIHNhbnMtc2VyaWY7IGZv bnQtc2l6ZTogMTJwdDsgY29sb3I6IHJnYigwLCAwLCAwKTsiPg0KUGV0ZXIgLSBJ4oCZbSBzY2Vw dGljYWwsIHRvby4gJm5ic3A7SSB0aG91Z2h0IGl0IGhpZ2hseSZuYnNwO3VubGlrZWx5IHRoYXQg QmlvUHl0aG9uIHdvdWxkIHdhbnQgdG8gYWRkIGEgZGVwZW5kZW5jZSBvbiBSdXN0LiBUaGUgQyBj b2RlIGNvdWxkIGJlIHVzZWQgdG8gZ2V0IHRoZSBzYW1lIHNwZWVkLXVwLiBUaGUgYXV0b21hdGlj IGRldGVjdGlvbiBvZiBjb21wcmVzc2VkIGlucHV0IChpbmNsdWRpbmcgb24gc3RkaW4pIHdvdWxk IGJlIGxvc3QsIGJ1dCBwZXJoYXBzIGNvdWxkDQogYmUgYWRkZWQuICZuYnNwO0RhbiAtIG1heWJl IENsYXVkZSBjb3VsZCBtYWtlIHRoZSBjaGFuZ2VzIGZvciBhIHByLiBJIHdvdWxkbuKAmXQgYmUg c3VycHJpc2VkLCBldmVuIHdpdGggc3VjaCBhIGxhcmdlIGNvZGViYXNlLjwvZGl2Pg0KPGRpdiBk aXI9Imx0ciIgc3R5bGU9ImZvbnQtZmFtaWx5OiBBcHRvcywgQXJpYWwsIEhlbHZldGljYSwgc2Fu cy1zZXJpZjsgZm9udC1zaXplOiAxMnB0OyBjb2xvcjogcmdiKDAsIDAsIDApOyI+DQo8YnI+DQo8 L2Rpdj4NCjxkaXYgZGlyPSJsdHIiIHN0eWxlPSJmb250LWZhbWlseTogQXB0b3MsIEFyaWFsLCBI ZWx2ZXRpY2EsIHNhbnMtc2VyaWY7IGZvbnQtc2l6ZTogMTJwdDsgY29sb3I6IHJnYigwLCAwLCAw KTsiPg0KUmVnYXJkaW5nIHRoZSB3aWRlciBwb2ludHMgbWFkZSBieSBQZXRlciBpbiBoaXMgYmxv ZyBwb3N0LCBJIGFncmVlIHdpdGggcHJvYmFibHkgYWxsIG9mIGl0LiBJIGhpZ2hseSBkb3VidCB0 aGF0IHRoZSBjdXJyZW50IHRyYWplY3RvcnkgKGluIHRlcm1zIG9mIGVuZXJneSB1c2UpIG9mIHRo ZXNlIHRvb2xzIGlzIHN1c3RhaW5hYmxlLCBhbmQgSSByZWd1bGFybHkgd29uZGVyIGFib3V0IGFj dHVhbCBjb3N0ICh0byB0aGUgcGxhbmV0KSBJIGFtIGluY3VycmluZw0KIHdoZW4gdXNpbmcgQ2xh dWRlLCBlc3BlY2lhbGx5IHdoZW4gaXTigJlzIGRvaW5nIHNvbWV0aGluZyBJIGNvdWxkIGRvIGlu IGVtYWNzIG9yIHdpdGggZS5nLiwgYSBwZXJsIG9uZS1saW5lci4gQnV0IEkgZ2V0IHN0dWZmIGRv bmUgYWJvdXQgMjB4IGFzIGZhc3Qgd2hlbiB1c2luZyBDbGF1ZGUsIGFuZCBJIGp1c3Qgc3BlYWsg dG8gaXQgKHVzaW5nIERpY3RhdGlvbiBvbiBPUyBYKSwgYmFyZWx5IHR5cGluZyBhIHRoaW5nLiBU aGF04oCZcyBhbGwgYW4gaW5jcmVkaWJsZQ0KIGNoYW5nZSBhZnRlciA0MCYjNDM7IHllYXJzIG9m IGhhdmluZyB0byBnZXQgdGhvdWdodHMgb3V0IG9mIG15IGJyYWluIGFuZCBpbnRvIHRoZSBjb21w dXRlciBvbmUga2V5c3Ryb2tlIGF0IGEgdGltZS4gSXQgZmVlbHMgbGlrZSBtYWdpYy4gQlVULCBJ IGhhdmUgdG8gd2F0Y2ggQ2xhdWRlIHZlcnkgY2FyZWZ1bGx5LCBsb29rIGF0IGl0cyBjb2RlLCBt YWtlIGl0IHdyaXRlIG1hbnkgdGVzdHMgYW5kIGV4cGxpY2l0bHkgcHJvdmUgdGhhdCBpdCBoYXMg bWFuYWdlZA0KIHRvIGRvIHdoYXQgd2FzIGludGVuZGVkLiBUaGF04oCZcyBub3Qgc28gZGlmZmVy ZW50IGZyb20gd2F0Y2hpbmcgeW91cnNlbGYgb3IgZG9pbmcgY29kZSByZXZpZXcgb2YgYSBqdW5p b3IgKHZlcnkgZW5lcmdldGljIGV2ZXItY2hlZXJmdWwpIHByb2dyYW1tZXIuPC9kaXY+DQo8ZGl2 IGRpcj0ibHRyIiBzdHlsZT0iZm9udC1mYW1pbHk6IEFwdG9zLCBBcmlhbCwgSGVsdmV0aWNhLCBz YW5zLXNlcmlmOyBmb250LXNpemU6IDEycHQ7IGNvbG9yOiByZ2IoMCwgMCwgMCk7Ij4NCjxicj4N CjwvZGl2Pg0KPGRpdiBkaXI9Imx0ciIgc3R5bGU9ImZvbnQtZmFtaWx5OiBBcHRvcywgQXJpYWws IEhlbHZldGljYSwgc2Fucy1zZXJpZjsgZm9udC1zaXplOiAxMnB0OyBjb2xvcjogcmdiKDAsIDAs IDApOyI+DQpJIGFncmVlIHRoYXQgYW4gQUkgKENsYXVkZSwgY2VydGFpbmx5KSBjb3VsZCBiZSB1 c2VkIHRvIHZlcnkgcXVpY2tseSBtYWtlIGdlbmVyYWwgaW1wcm92ZW1lbnRzIHRvIGEgY29kZWJh c2Ugd2l0aCB2ZXJ5IGxpdHRsZSByaXNrIChhc3N1bWluZyBhIHRlc3Qgc3VpdGUgZXhpc3RzKS4g SeKAmXZlIGRvbmUgdGhhdCBxdWl0ZSBhIGZldyB0aW1lcywgZS5nLiwgdGVsbGluZyBDbGF1ZGUg SSBubyBsb25nZXIgbmVlZCBzdXBwb3J0IGZvciBQeXRob24gMy5YDQogYW5kIHRvIG1vZGVybmlz ZSB0aGUgdHlwaW5nIGhpbnRzIGZvciAzLlgmIzQzOzEsIG9yIHRvIGFkZCB0eXBpbmcgaGludHMs IGV0Yy4gJm5ic3A7SXTigJlzIGFsc28gZ29vZCBhdCBwcm9kdWNpbmcgZG9jdW1lbnRhdGlvbi48 L2Rpdj4NCjxkaXYgZGlyPSJsdHIiIHN0eWxlPSJmb250LWZhbWlseTogQXB0b3MsIEFyaWFsLCBI ZWx2ZXRpY2EsIHNhbnMtc2VyaWY7IGZvbnQtc2l6ZTogMTJwdDsgY29sb3I6IHJnYigwLCAwLCAw KTsiPg0KPGJyPg0KPC9kaXY+DQo8ZGl2IGRpcj0ibHRyIiBzdHlsZT0iZm9udC1mYW1pbHk6IEFw dG9zLCBBcmlhbCwgSGVsdmV0aWNhLCBzYW5zLXNlcmlmOyBmb250LXNpemU6IDEycHQ7IGNvbG9y OiByZ2IoMCwgMCwgMCk7Ij4NCknigJltIG5vdCBzdXJlIHdoZXJlIHRoaXMgbGVhdmVzIHVzLiAm bmJzcDtJZiB0aGVyZeKAmXMgYWdyZWVtZW50IHRoYXQgYSBDIGV4dGVuc2lvbiB3b3VsZCBiZSBn b29kIHRvIGhhdmUsIHRoZSBvbmUgQ2xhdWRlIG1hZGUgZm9yIG15IHByc2VxIHByb2plY3QgYmVu Y2htYXJrIHN1aXRlIGlzIHRlc3RlZCBhbmQgY291bGQgYmUgdXNlZC4gSSBoYXZlbuKAmXQgbG9v a2VkIGF0IHRoZSBCaW9QeXRob24gY29kZSBjbG9zZWx5IGVub3VnaCB0byBrbm93IGhvdyBtdWNo IHdvcmsNCiB0aGF0IHdvdWxkIGJlLCB0aG91Z2guPC9kaXY+DQo8ZGl2IGRpcj0ibHRyIiBzdHls ZT0iZm9udC1mYW1pbHk6IEFwdG9zLCBBcmlhbCwgSGVsdmV0aWNhLCBzYW5zLXNlcmlmOyBmb250 LXNpemU6IDEycHQ7IGNvbG9yOiByZ2IoMCwgMCwgMCk7Ij4NCjxicj4NCjwvZGl2Pg0KPGRpdiBk aXI9Imx0ciIgc3R5bGU9ImZvbnQtZmFtaWx5OiBBcHRvcywgQXJpYWwsIEhlbHZldGljYSwgc2Fu cy1zZXJpZjsgZm9udC1zaXplOiAxMnB0OyBjb2xvcjogcmdiKDAsIDAsIDApOyI+DQpUaGFua3Mg YWdhaW4gZm9yIHRoZSB0aG91Z2h0ZnVsIHJlcGxpZXMuIFRoZXJlIHdhcyBhbiBlYXJsaWVyIG9u ZSBhc2tpbmcgd2h5IHRoZSBCaW9QeXRob24gY29kZSB3YXMgc2xvd2VyIHRoYW4gQ2xhdWRl4oCZ cyBtaW5pbWFsIHB1cmUgUHl0aG9uLCBhbmQgc3VnZ2VzdGluZyB0aGF0IHdvdWxkIGJlIGR1ZSB0 byB0aGUgb3ZlcmhlYWQgb2YgbWFraW5nIFNlcVJlY29yZHMuIEkgdGhpbmsgdGhhdCBtdXN0IGJl IHRoZSBjYXNlLiBUaGUgaW1wYWN0IGlzDQogbXVjaCBtb3JlIHNldmVyZSB3aXRoIEZBU1RRIHRo YW4gRkFTVEEsIHNvIEkgZ3Vlc3MgZGVhbGluZyB3aXRoIHRoZSBxdWFsaXR5IHN0cmluZ3MgbXVz dCBiZSBxdWl0ZSBleHBlbnNpdmUuPC9kaXY+DQo8ZGl2IGRpcj0ibHRyIiBzdHlsZT0iZm9udC1m YW1pbHk6IEFwdG9zLCBBcmlhbCwgSGVsdmV0aWNhLCBzYW5zLXNlcmlmOyBmb250LXNpemU6IDEy cHQ7IGNvbG9yOiByZ2IoMCwgMCwgMCk7Ij4NCjxicj4NCjwvZGl2Pg0KPGRpdiBkaXI9Imx0ciIg c3R5bGU9ImZvbnQtZmFtaWx5OiBBcHRvcywgQXJpYWwsIEhlbHZldGljYSwgc2Fucy1zZXJpZjsg Zm9udC1zaXplOiAxMnB0OyBjb2xvcjogcmdiKDAsIDAsIDApOyI+DQpCZXN0LDwvZGl2Pg0KPGRp diBkaXI9Imx0ciIgc3R5bGU9ImZvbnQtZmFtaWx5OiBBcHRvcywgQXJpYWwsIEhlbHZldGljYSwg c2Fucy1zZXJpZjsgZm9udC1zaXplOiAxMnB0OyBjb2xvcjogcmdiKDAsIDAsIDApOyI+DQpUZXJy eTwvZGl2Pg0KPGRpdiBkaXI9Imx0ciIgc3R5bGU9ImZvbnQtZmFtaWx5OiBBcHRvcywgQXJpYWws IEhlbHZldGljYSwgc2Fucy1zZXJpZjsgZm9udC1zaXplOiAxMnB0OyBjb2xvcjogcmdiKDAsIDAs IDApOyI+DQo8YnI+DQo8L2Rpdj4NCjxkaXYgaWQ9Im1haWwtZWRpdG9yLXJlZmVyZW5jZS1tZXNz YWdlLWNvbnRhaW5lciI+DQo8ZGl2IGNsYXNzPSJtcy1vdXRsb29rLW1vYmlsZS1yZWZlcmVuY2Ut bWVzc2FnZSBza2lwUHJvb2ZpbmciPg0KPG1ldGEgbmFtZT0iR2VuZXJhdG9yIiBjb250ZW50PSJN aWNyb3NvZnQgRXhjaGFuZ2UgU2VydmVyIj4NCjwvZGl2Pg0KPGRpdiBjbGFzcz0ibXMtb3V0bG9v ay1tb2JpbGUtcmVmZXJlbmNlLW1lc3NhZ2Ugc2tpcFByb29maW5nIiBzdHlsZT0idGV4dC1hbGln bjogbGVmdDsgcGFkZGluZzogM3B0IDBpbiAwaW47IGJvcmRlci13aWR0aDogMXB0IG1lZGl1bSBt ZWRpdW07IGJvcmRlci1zdHlsZTogc29saWQgbm9uZSBub25lOyBib3JkZXItY29sb3I6IHJnYigx ODEsIDE5NiwgMjIzKSBjdXJyZW50Y29sb3IgY3VycmVudGNvbG9yOyBmb250LWZhbWlseTogQXB0 b3M7IGZvbnQtc2l6ZTogMTJwdDsgY29sb3I6IGJsYWNrOyI+DQo8Yj5Gcm9tOiA8L2I+UGV0ZXIg Q29jayAmbHQ7cC5qLmEuY29ja0Bnb29nbGVtYWlsLmNvbSZndDs8YnI+DQo8Yj5EYXRlOiA8L2I+ TW9uZGF5LCAyNC4gTm92ZW1iZXIgMjAyNSBhdCAxMDo0MTxicj4NCjxiPlRvOiA8L2I+Sm9uZXMg S2VsbHksIFRlcmVuY2UgQ2FybGV0b24gJmx0O3RlcmVuY2Uuam9uZXNAY2hhcml0ZS5kZSZndDs8 YnI+DQo8Yj5DYzogPC9iPmJpb3B5dGhvbkBiaW9weXRob24ub3JnICZsdDtiaW9weXRob25AYmlv cHl0aG9uLm9yZyZndDs8YnI+DQo8Yj5TdWJqZWN0OiA8L2I+W2V4dF0gUmU6IFtCaW9weXRob25d IEEgcG9zc2liaWxpdHkgZm9yIHNwZWVkaW5nIHVwIEZBU1RBL0ZBU1RRIHJlYWRpbmcgaW4gQmlv UHl0aG9uPGJyPg0KPGJyPg0KPC9kaXY+DQo8ZGl2IGNsYXNzPSJQbGFpblRleHQiIHN0eWxlPSJm b250LXNpemU6IDEwcHQ7Ij5IZWxsbyBUZXJyeSw8YnI+DQo8YnI+DQpJIGp1c3QgcG9zdGVkIGEg YmxvZyBhYm91dCBteSB0aG91Z2h0cyBvbiByZWNlaXZpbmcgZ2VuZXJhdGl2ZSBBSTxicj4NCmNv bnRyaWJ1dGlvbnMgYXMgYW4gT3BlbiBTb3VyY2UgcHJvamVjdCBtYWludGFpbmVyOjxicj4NCjxi cj4NCjxhIGhyZWY9Imh0dHBzOi8vYmxhc3RlZGJpby5ibG9nc3BvdC5jb20vMjAyNS8xMS90aG91 Z2h0cy1vbi1nZW5lcmF0aXZlLWFpLWNvbnRyaWJ1dGlvbnMuaHRtbCIgZGF0YS1vdXRsb29rLWlk PSI3NWNmZjczYy1kMDkxLTQ0OWUtODhmOS0xOTkyYzE1OGFkNTQiPmh0dHBzOi8vYmxhc3RlZGJp by5ibG9nc3BvdC5jb20vMjAyNS8xMS90aG91Z2h0cy1vbi1nZW5lcmF0aXZlLWFpLWNvbnRyaWJ1 dGlvbnMuaHRtbDwvYT48YnI+DQo8YnI+DQpJIGFtIHNjZXB0aWNhbCwgYW5kIGluIHRoaXMgY2Fz ZSBhZGRpbmcgYSBSdXN0IGRlcGVuZGVuY3kgdG8gQmlvcHl0aG9uPGJyPg0Kc2VlbXMgdG9vIG11 Y2ggdG8gYXNrLiBJIHRoaW5rIHlvdSBjb3VsZCBnZXQgc2ltaWxhciBwZXJmb3JtYW5jZSBnYWlu czxicj4NCndpdGggQyAod2hpY2ggd2UgZG8gdXNlKSB3aGVyZSBhdCBsZWFzdCB0aGUgbWFpbnRh aW5lcnMgaGF2ZSBzb21lPGJyPg0KZXhwZXJpZW5jZS4gSG93ZXZlciwgZXZlbiB0aGVyZSwgZ2Fp bnMgbWF5IG5vdCBtYWtlIHRoZSBhZGRpdGlvbmFsPGJyPg0KY29tcGxleGl0eSBhbmQgbWFpbnRl bmFuY2UgYnVyZGVuIHdvcnRod2hpbGUuPGJyPg0KPGJyPg0KVGhhbmsgeW91IGZvciB3cml0dGlu ZyBhbmQgYXNraW5nLCByYXRoZXIgdGhhbiBzdXByaXNpbmcgZXZlcnlvbmUgd2l0aDxicj4NCmEg bGFyZ2UgcHVsbCByZXF1ZXN0Ljxicj4NCjxicj4NClBldGVyPGJyPg0KPGJyPg0KUC5TLiBDcm9z cyByZWZlcmVuY2UgPGEgaHJlZj0iaHR0cHM6Ly9naXRodWIuY29tL2Jpb3B5dGhvbi9iaW9weXRo b24vcHVsbC81MDg1IiBkYXRhLW91dGxvb2staWQ9IjI0YjYyYzlhLWFjMDctNDZmNC04ZWQ2LWVm M2E5OTMwNWEwZSI+DQpodHRwczovL2dpdGh1Yi5jb20vYmlvcHl0aG9uL2Jpb3B5dGhvbi9wdWxs LzUwODU8L2E+PGJyPg0KPGJyPg0KT24gVHVlLCBOb3YgMTEsIDIwMjUgYXQgMTA6MDDigK9QTSBK b25lcyBLZWxseSwgVGVyZW5jZSBDYXJsZXRvbjxicj4NCiZsdDt0ZXJlbmNlLmpvbmVzQGNoYXJp dGUuZGUmZ3Q7IHdyb3RlOjxicj4NCiZndDs8YnI+DQomZ3Q7IEhpIGFsbDxicj4NCiZndDs8YnI+ DQomZ3Q7IEkgcmVndWxhcmx5IHByb2Nlc3MgcmVhc29uYWJseSBsYXJnZSBGQVNUUSAoaHVuZHJl ZHMgb2YgYmlsbGlvbnMgb2Ygc2VxdWVuY2luZyByZWFkcykgYW5kIEZBU1RBIGZpbGVzIHVzaW5n IEJpb1B5dGhvbi4gRm9yIHNvbWUgeWVhcnMgSSd2ZSBiZWVuIG1lYW5pbmcgdG8gaW1wbGVtZW50 IGEgRkFTVFEvRkFTVEEgcmVhZGVyIGluIGEgY29tcGlsZWQgbGFuZ3VhZ2UgYW5kIGFkZCBQeXRo b24gYmluZGluZ3MgdG8gaW1wcm92ZSB0aGUgc3BlZWQuDQogSSBjb3VsZCd2ZSBkb25lIHRoaXMg aW4gQyBidXQgSSBzcGVudCBzb21lIGRlY2FkZXMgd3JpdGluZyBDIGFuZCBJIHdhbnRlZCB0byBs ZWFybiBzb21ldGhpbmcgbmV3LCBzbyBJIGNvbnNpZGVyZWQgYSBmZXcgbGFuZ3VhZ2VzLiBCZWNh dXNlIFJ1c3QgbWFrZXMgaXQgdmVyeSBlYXN5IHRvIGNyZWF0ZSBQeXRob24gYmluZGluZ3MsIEkg ZGVjaWRlZCB0byBnaXZlIGl0IGEgdHJ5LiBJIHRob3VnaHQgSSdkIGdldCBnb2luZyBieSBhc2tp bmcgdGhlDQogQ2xhdWRlIENMSSB0byB3cml0ZSBtZSBzb21lIFJ1c3QuIFRoYXQgdHVybmVkIG91 dCB0byBiZSBhIG11Y2gsIG11Y2ggYmV0dGVyIGV4cGVyaWVuY2UgdGhhbiBJIGhhZCBhbnRpY2lw YXRlZC4gV2l0aCBDbGF1ZGUgSSBwbGF5ZWQgd2l0aCBzZXZlcmFsIGltcGxlbWVudGF0aW9ucywg a2VlcGluZyB0cmFjayBvZiB0aW1pbmcuIENsYXVkZSBhbHNvIHdyb3RlIHNvbWUgdGVzdHMuIFRv IGNvbXBhcmUgd2hhdCBJIHdhcyBzZWVpbmcgSSBnb3QgQ2xhdWRlDQogdG8gd3JpdGUgYSBwdXJl IFB5dGhvbiB2ZXJzaW9uLCBhIHB1cmUgQyB2ZXJzaW9uLCBQeXRob24gYmluZGluZ3MgdG8gdGhl IEMsIGFuZCB0byBjcmVhdGUgYSBiZW5jaG1hcmsgc3VpdGUuIEZyb20gd2hhdCBJIGNhbiB0ZWxs LCB0aGUgUnVzdC9QeXRob24gKGFuZCB0aGUgQy9QeXRob24pIEZBU1RBIHJlYWRpbmcgaXMgdHdp Y2UgYXMgZmFzdCBhcyBCaW9QeXRob24gYW5kIEZBU1RRIHJlYWRpbmcgaXMgZm91ciB0aW1lcyBh cyBmYXN0LiBJIGRpZG4ndA0KIHdyaXRlIGEgc2luZ2xlIGxpbmUgb2YgY29kZS4gSSBqdXN0IGRp ZCBzb21lIG1pbmltYWwgY2xlYW5pbmcgdXAgd2hlbiB0aGluZ3Mgd2VyZSBhbHJlYWR5IGZhciBh bG9uZy4gSSd2ZSBiZWVuIHVzaW5nIHRoZSBjb2RlIGZvciB0aGUgbGFzdCBtb250aCBvciB0d28g d2l0aCBubyBwcm9ibGVtcy48YnI+DQomZ3Q7PGJyPg0KJmd0OyBUaGUgcmVwbyBpcyBhdCA8YSBo cmVmPSJodHRwczovL2dpdGh1Yi5jb20vVmlyb2xvZ3lDaGFyaXRlL3Byc2VxIiBkYXRhLW91dGxv b2staWQ9ImM0MzA4ODhmLTBiZTgtNDc0Yi04MDBjLTAzNGRhYmUyNzhmNCI+DQpodHRwczovL2dp dGh1Yi5jb20vVmlyb2xvZ3lDaGFyaXRlL3Byc2VxPC9hPiZuYnNwOyAocHJzZXEgPSBQeXRob24v UnVzdCBmb3Igc2VxdWVuY2VzKS4gWW91J2xsIGZpbmQgdGhlIGJlbmNobWFyayByZXN1bHRzIG9u IHRoYXQgcGFnZS4mbmJzcDsgVGhlcmUgYXJlIHN0aWxsIHNvbWUgc21hbGwgdGhpbmdzIEkgd291 bGQgYWRqdXN0IGluIHRoZSBBUEkuJm5ic3A7IEJUVywgQ2xhdWRlIGFsc28gd3JvdGUgdGhlIFJF QURNRSAod2hpY2ggc2hvdWxkIGRlZmluaXRlbHkgYmUgaW1wcm92ZWQpLjxicj4NCiZndDs8YnI+ DQomZ3Q7IEkgYW0gd29uZGVyaW5nIGlmIHRoZXJlIG1pZ2h0IGJlIGludGVyZXN0IGluIGluY29y cG9yYXRpbmcgdGhpcyBpbnRvIEJpb1B5dGhvbi4gSSBkb24ndCBrbm93IGlmIHRoZXJlIGFyZSBh bnkgUnVzdCBkZXBlbmRlbmNpZXMgaW4gQmlvUHl0aG9uIGJ1dCBJIGtub3cgdGhhdCB0aGVyZSBh cmUgc29tZSBDIGV4dGVuc2lvbnMuIFdlIGNvdWxkIHVzZSBlaXRoZXIsIGFzIHRoZWlyIHNwZWVk cyBhcmUgY29tcGFyYWJsZS4gSWYgdGhlcmUncyBpbnRlcmVzdCwNCiBJJ2QgYmUgaGFwcHkgdG8g aGVscCAob3IgdG8gZG8gaXQgYWxsLCBhZnRlciBzb21lIGRpc2N1c3Npb24gYW5kIG1heWJlIHdp dGggc29tZSBndWlkYW5jZSkuPGJyPg0KJmd0Ozxicj4NCiZndDsgVGhhbmtzIHZlcnkgbXVjaCBm b3IgYWxsIHRoZSB3b3JrIG9uIEJpb1B5dGhvbi4gSXQncyByZWFsbHkgYmVlbiBhIHBsZWFzdXJl IHRvIHVzZSB0aGUgY29kZSBvdmVyIHRoZSBsYXN0IGRvemVuIHllYXJzIG9yIHNvLjxicj4NCiZn dDs8YnI+DQomZ3Q7IFRlcnJ5IEpvbmVzPGJyPg0KJmd0Ozxicj4NCiZndDs8YnI+DQomZ3Q7IF9f X19fX19fX19fX19fX19fX19fX19fX19fX19fX19fX19fX19fX19fX19fX19fPGJyPg0KJmd0OyBC aW9weXRob24gbWFpbGluZyBsaXN0Jm5ic3A7IC0mbmJzcDsgQmlvcHl0aG9uQGJpb3B5dGhvbi5v cmc8YnI+DQomZ3Q7IDxhIGhyZWY9Imh0dHBzOi8vbWFpbG1hbi5vcGVuLWJpby5vcmcvbWFpbG1h bi9saXN0aW5mby9iaW9weXRob24iIGRhdGEtb3V0bG9vay1pZD0iZWNhOTY3YjEtZGM5Ni00OGI0 LWJhZTgtZTE0MTQ5MDVjY2IyIj4NCmh0dHBzOi8vbWFpbG1hbi5vcGVuLWJpby5vcmcvbWFpbG1h bi9saXN0aW5mby9iaW9weXRob248L2E+PGJyPg0KPC9kaXY+DQo8L2Rpdj4NCjwvYm9keT4NCjwv aHRtbD4NCg== --_000_5b4705cef7194d299e17295c627e8ce5charitede_-- --===============8359502673403356115== Content-Type: text/plain; charset="us-ascii" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit Content-Disposition: inline _______________________________________________ Biopython mailing list - [email protected] https://mailman.open-bio.org/mailman/listinfo/biopython --===============8359502673403356115==--