Skip to content

Instantly share code, notes, and snippets.

@ivirshup

ivirshup/log.txt

Created February 3, 2021 09:56
Show Gist options
  • Star 0 You must be signed in to star a gist
  • Fork 0 You must be signed in to fork a gist
  • Save ivirshup/1aeab892ff92733e8dace010abdcaddd to your computer and use it in GitHub Desktop.
Save ivirshup/1aeab892ff92733e8dace010abdcaddd to your computer and use it in GitHub Desktop.
Download ZIP
scanorama error log
Raw
log.txt
2021-02-03T05:26:14.6653679Z ##[section]Starting: PyTest Python36
2021-02-03T05:26:14.9395796Z ##[section]Starting: Initialize job
2021-02-03T05:26:14.9397123Z Agent name: 'Azure Pipelines 4'
2021-02-03T05:26:14.9397517Z Agent machine name: 'fv-az315-103'
2021-02-03T05:26:14.9397757Z Current agent version: '2.181.1'
2021-02-03T05:26:14.9441788Z ##[group]Operating System
2021-02-03T05:26:14.9442012Z Ubuntu
2021-02-03T05:26:14.9442183Z 18.04.5
2021-02-03T05:26:14.9442318Z LTS
2021-02-03T05:26:14.9442484Z ##[endgroup]
2021-02-03T05:26:14.9442659Z ##[group]Virtual Environment
2021-02-03T05:26:14.9442877Z Environment: ubuntu-18.04
2021-02-03T05:26:14.9443065Z Version: 20210123.1
2021-02-03T05:26:14.9443394Z Included Software: https://github.com/actions/virtual-environments/blob/ubuntu18/20210123.1/images/linux/Ubuntu1804-README.md
2021-02-03T05:26:14.9443693Z ##[endgroup]
2021-02-03T05:26:14.9444685Z Current image version: '20210123.1'
2021-02-03T05:26:14.9450091Z Agent running as: 'vsts'
2021-02-03T05:26:14.9499601Z Prepare build directory.
2021-02-03T05:26:14.9773107Z Set build variables.
2021-02-03T05:26:14.9810770Z Download all required tasks.
2021-02-03T05:26:14.9941666Z Downloading task: UsePythonVersion (0.181.0)
2021-02-03T05:26:16.8489350Z Downloading task: Cache (2.0.1)
2021-02-03T05:26:16.8821506Z Downloading task: CmdLine (2.178.0)
2021-02-03T05:26:17.0861669Z Downloading task: PublishCodeCoverageResults (1.180.0)
2021-02-03T05:26:18.3457080Z Downloading task: PublishTestResults (2.171.0)
2021-02-03T05:26:18.8779930Z Checking job knob settings.
2021-02-03T05:26:18.8787550Z Knob: AgentToolsDirectory = /opt/hostedtoolcache Source: ${AGENT_TOOLSDIRECTORY}
2021-02-03T05:26:18.8789041Z Knob: AgentPerflog = /home/vsts/perflog Source: ${VSTS_AGENT_PERFLOG}
2021-02-03T05:26:18.8790054Z Finished checking job knob settings.
2021-02-03T05:26:18.9183790Z Start tracking orphan processes.
2021-02-03T05:26:18.9353292Z ##[section]Finishing: Initialize job
2021-02-03T05:26:18.9682680Z ##[section]Starting: Checkout theislab/scanpy@master to s
2021-02-03T05:26:18.9907354Z ==============================================================================
2021-02-03T05:26:18.9907941Z Task : Get sources
2021-02-03T05:26:18.9908791Z Description : Get sources from a repository. Supports Git, TfsVC, and SVN repositories.
2021-02-03T05:26:18.9909050Z Version : 1.0.0
2021-02-03T05:26:18.9909641Z Author : Microsoft
2021-02-03T05:26:18.9910330Z Help : [More Information](https://go.microsoft.com/fwlink/?LinkId=798199)
2021-02-03T05:26:18.9910880Z ==============================================================================
2021-02-03T05:26:19.8653849Z Syncing repository: theislab/scanpy (GitHub)
2021-02-03T05:26:19.8658523Z ##[command]git version
2021-02-03T05:26:19.8663957Z git version 2.30.0
2021-02-03T05:26:19.8665421Z ##[command]git lfs version
2021-02-03T05:26:19.8672249Z git-lfs/2.13.2 (GitHub; linux amd64; go 1.15.5)
2021-02-03T05:26:19.8676135Z ##[command]git init "/home/vsts/work/1/s"
2021-02-03T05:26:19.8681047Z hint: Using 'master' as the name for the initial branch. This default branch name
2021-02-03T05:26:19.8681428Z hint: is subject to change. To configure the initial branch name to use in all
2021-02-03T05:26:19.8681808Z hint: of your new repositories, which will suppress this warning, call:
2021-02-03T05:26:19.8682111Z hint:
2021-02-03T05:26:19.8682504Z hint: git config --global init.defaultBranch <name>
2021-02-03T05:26:19.8682771Z hint:
2021-02-03T05:26:19.8683198Z hint: Names commonly chosen instead of 'master' are 'main', 'trunk' and
2021-02-03T05:26:19.8683713Z hint: 'development'. The just-created branch can be renamed via this command:
2021-02-03T05:26:19.8684031Z hint:
2021-02-03T05:26:19.8684385Z hint: git branch -m <name>
2021-02-03T05:26:19.8685149Z Initialized empty Git repository in /home/vsts/work/1/s/.git/
2021-02-03T05:26:19.8686229Z ##[command]git remote add origin https://github.com/theislab/scanpy
2021-02-03T05:26:19.8695307Z ##[command]git config gc.auto 0
2021-02-03T05:26:19.8701120Z ##[command]git config --get-all http.https://github.com/theislab/scanpy.extraheader
2021-02-03T05:26:19.8708371Z ##[command]git config --get-all http.proxy
2021-02-03T05:26:19.8715019Z ##[command]git config http.version HTTP/1.1
2021-02-03T05:26:19.8724982Z ##[command]git -c http.extraheader="AUTHORIZATION: basic ***" fetch --force --tags --prune --progress --no-recurse-submodules origin
2021-02-03T05:26:20.7469992Z remote: Enumerating objects: 266, done.
2021-02-03T05:26:20.7471398Z remote: Counting objects: 0% (1/266)
2021-02-03T05:26:20.7508863Z remote: Counting objects: 1% (3/266)
2021-02-03T05:26:20.7510782Z remote: Counting objects: 2% (6/266)
2021-02-03T05:26:20.7512021Z remote: Counting objects: 3% (8/266)
2021-02-03T05:26:20.7512900Z remote: Counting objects: 4% (11/266)
2021-02-03T05:26:20.7513893Z remote: Counting objects: 5% (14/266)
2021-02-03T05:26:20.7514771Z remote: Counting objects: 6% (16/266)
2021-02-03T05:26:20.7515559Z remote: Counting objects: 7% (19/266)
2021-02-03T05:26:20.7516426Z remote: Counting objects: 8% (22/266)
2021-02-03T05:26:20.7517213Z remote: Counting objects: 9% (24/266)
2021-02-03T05:26:20.7517883Z remote: Counting objects: 10% (27/266)
2021-02-03T05:26:20.7518911Z remote: Counting objects: 11% (30/266)
2021-02-03T05:26:20.7519589Z remote: Counting objects: 12% (32/266)
2021-02-03T05:26:20.7520133Z remote: Counting objects: 13% (35/266)
2021-02-03T05:26:20.7521284Z remote: Counting objects: 14% (38/266)
2021-02-03T05:26:20.7522034Z remote: Counting objects: 15% (40/266)
2021-02-03T05:26:20.7523129Z remote: Counting objects: 16% (43/266)
2021-02-03T05:26:20.7523954Z remote: Counting objects: 17% (46/266)
2021-02-03T05:26:20.7525049Z remote: Counting objects: 18% (48/266)
2021-02-03T05:26:20.7526337Z remote: Counting objects: 19% (51/266)
2021-02-03T05:26:20.7527498Z remote: Counting objects: 20% (54/266)
2021-02-03T05:26:20.7528468Z remote: Counting objects: 21% (56/266)
2021-02-03T05:26:20.7528974Z remote: Counting objects: 22% (59/266)
2021-02-03T05:26:20.7529461Z remote: Counting objects: 23% (62/266)
2021-02-03T05:26:20.7530336Z remote: Counting objects: 24% (64/266)
2021-02-03T05:26:20.7530848Z remote: Counting objects: 25% (67/266)
2021-02-03T05:26:20.7531361Z remote: Counting objects: 26% (70/266)
2021-02-03T05:26:20.7531748Z remote: Counting objects: 27% (72/266)
2021-02-03T05:26:20.7532083Z remote: Counting objects: 28% (75/266)
2021-02-03T05:26:20.7532415Z remote: Counting objects: 29% (78/266)
2021-02-03T05:26:20.7532733Z remote: Counting objects: 30% (80/266)
2021-02-03T05:26:20.7533070Z remote: Counting objects: 31% (83/266)
2021-02-03T05:26:20.7533447Z remote: Counting objects: 32% (86/266)
2021-02-03T05:26:20.7533766Z remote: Counting objects: 33% (88/266)
2021-02-03T05:26:20.7534139Z remote: Counting objects: 34% (91/266)
2021-02-03T05:26:20.7534472Z remote: Counting objects: 35% (94/266)
2021-02-03T05:26:20.7534785Z remote: Counting objects: 36% (96/266)
2021-02-03T05:26:20.7535114Z remote: Counting objects: 37% (99/266)
2021-02-03T05:26:20.7535449Z remote: Counting objects: 38% (102/266)
2021-02-03T05:26:20.7535767Z remote: Counting objects: 39% (104/266)
2021-02-03T05:26:20.7536101Z remote: Counting objects: 40% (107/266)
2021-02-03T05:26:20.7536440Z remote: Counting objects: 41% (110/266)
2021-02-03T05:26:20.7536776Z remote: Counting objects: 42% (112/266)
2021-02-03T05:26:20.7537094Z remote: Counting objects: 43% (115/266)
2021-02-03T05:26:20.7537432Z remote: Counting objects: 44% (118/266)
2021-02-03T05:26:20.7537764Z remote: Counting objects: 45% (120/266)
2021-02-03T05:26:20.7539166Z remote: Counting objects: 46% (123/266)
2021-02-03T05:26:20.7540673Z remote: Counting objects: 47% (126/266)
2021-02-03T05:26:20.7541027Z remote: Counting objects: 48% (128/266)
2021-02-03T05:26:20.7541366Z remote: Counting objects: 49% (131/266)
2021-02-03T05:26:20.7541684Z remote: Counting objects: 50% (133/266)
2021-02-03T05:26:20.7542200Z remote: Counting objects: 51% (136/266)
2021-02-03T05:26:20.7542544Z remote: Counting objects: 52% (139/266)
2021-02-03T05:26:20.7542872Z remote: Counting objects: 53% (141/266)
2021-02-03T05:26:20.7543215Z remote: Counting objects: 54% (144/266)
2021-02-03T05:26:20.7543557Z remote: Counting objects: 55% (147/266)
2021-02-03T05:26:20.7543881Z remote: Counting objects: 56% (149/266)
2021-02-03T05:26:20.7544560Z remote: Counting objects: 57% (152/266)
2021-02-03T05:26:20.7544902Z remote: Counting objects: 58% (155/266)
2021-02-03T05:26:20.7545321Z remote: Counting objects: 59% (157/266)
2021-02-03T05:26:20.7546264Z remote: Counting objects: 60% (160/266)
2021-02-03T05:26:20.7546774Z remote: Counting objects: 61% (163/266)
2021-02-03T05:26:20.7547544Z remote: Counting objects: 62% (165/266)
2021-02-03T05:26:20.7548140Z remote: Counting objects: 63% (168/266)
2021-02-03T05:26:20.7549403Z remote: Counting objects: 64% (171/266)
2021-02-03T05:26:20.7550024Z remote: Counting objects: 65% (173/266)
2021-02-03T05:26:20.7550471Z remote: Counting objects: 66% (176/266)
2021-02-03T05:26:20.7551067Z remote: Counting objects: 67% (179/266)
2021-02-03T05:26:20.7551486Z remote: Counting objects: 68% (181/266)
2021-02-03T05:26:20.7563593Z remote: Counting objects: 69% (184/266)
2021-02-03T05:26:20.7564310Z remote: Counting objects: 70% (187/266)
2021-02-03T05:26:20.7565045Z remote: Counting objects: 71% (189/266)
2021-02-03T05:26:20.7565934Z remote: Counting objects: 72% (192/266)
2021-02-03T05:26:20.7566496Z remote: Counting objects: 73% (195/266)
2021-02-03T05:26:20.7567323Z remote: Counting objects: 74% (197/266)
2021-02-03T05:26:20.7568080Z remote: Counting objects: 75% (200/266)
2021-02-03T05:26:20.7568856Z remote: Counting objects: 76% (203/266)
2021-02-03T05:26:20.7569585Z remote: Counting objects: 77% (205/266)
2021-02-03T05:26:20.7570321Z remote: Counting objects: 78% (208/266)
2021-02-03T05:26:20.7571165Z remote: Counting objects: 79% (211/266)
2021-02-03T05:26:20.7571920Z remote: Counting objects: 80% (213/266)
2021-02-03T05:26:20.7572643Z remote: Counting objects: 81% (216/266)
2021-02-03T05:26:20.7573625Z remote: Counting objects: 82% (219/266)
2021-02-03T05:26:20.7574409Z remote: Counting objects: 83% (221/266)
2021-02-03T05:26:20.7575158Z remote: Counting objects: 84% (224/266)
2021-02-03T05:26:20.7576042Z remote: Counting objects: 85% (227/266)
2021-02-03T05:26:20.7576932Z remote: Counting objects: 86% (229/266)
2021-02-03T05:26:20.7577698Z remote: Counting objects: 87% (232/266)
2021-02-03T05:26:20.7578411Z remote: Counting objects: 88% (235/266)
2021-02-03T05:26:20.7579746Z remote: Counting objects: 89% (237/266)
2021-02-03T05:26:20.7580603Z remote: Counting objects: 90% (240/266)
2021-02-03T05:26:20.7581386Z remote: Counting objects: 91% (243/266)
2021-02-03T05:26:20.7587136Z remote: Counting objects: 92% (245/266)
2021-02-03T05:26:20.7588681Z remote: Counting objects: 93% (248/266)
2021-02-03T05:26:21.7474747Z remote: Counting objects: 94% (251/266)
2021-02-03T05:26:21.7476610Z remote: Counting objects: 95% (253/266)
2021-02-03T05:26:21.7477468Z remote: Counting objects: 96% (256/266)
2021-02-03T05:26:21.7478014Z remote: Counting objects: 97% (259/266)
2021-02-03T05:26:21.7478494Z remote: Counting objects: 98% (261/266)
2021-02-03T05:26:21.7478871Z remote: Counting objects: 99% (264/266)
2021-02-03T05:26:21.7479457Z remote: Counting objects: 100% (266/266)
2021-02-03T05:26:21.7479847Z remote: Counting objects: 100% (266/266), done.
2021-02-03T05:26:21.7480233Z remote: Compressing objects: 0% (1/187)
2021-02-03T05:26:21.7480605Z remote: Compressing objects: 1% (2/187)
2021-02-03T05:26:21.7480962Z remote: Compressing objects: 2% (4/187)
2021-02-03T05:26:21.7481331Z remote: Compressing objects: 3% (6/187)
2021-02-03T05:26:21.7481760Z remote: Compressing objects: 4% (8/187)
2021-02-03T05:26:21.7482119Z remote: Compressing objects: 5% (10/187)
2021-02-03T05:26:21.7482495Z remote: Compressing objects: 6% (12/187)
2021-02-03T05:26:21.7482871Z remote: Compressing objects: 7% (14/187)
2021-02-03T05:26:21.7483227Z remote: Compressing objects: 8% (15/187)
2021-02-03T05:26:21.7483777Z remote: Compressing objects: 9% (17/187)
2021-02-03T05:26:21.7484158Z remote: Compressing objects: 10% (19/187)
2021-02-03T05:26:21.7484574Z remote: Compressing objects: 11% (21/187)
2021-02-03T05:26:21.7484947Z remote: Compressing objects: 12% (23/187)
2021-02-03T05:26:21.7485302Z remote: Compressing objects: 13% (25/187)
2021-02-03T05:26:21.7485676Z remote: Compressing objects: 14% (27/187)
2021-02-03T05:26:21.7486048Z remote: Compressing objects: 15% (29/187)
2021-02-03T05:26:21.7486402Z remote: Compressing objects: 16% (30/187)
2021-02-03T05:26:21.7486775Z remote: Compressing objects: 17% (32/187)
2021-02-03T05:26:21.7487151Z remote: Compressing objects: 18% (34/187)
2021-02-03T05:26:21.7487508Z remote: Compressing objects: 19% (36/187)
2021-02-03T05:26:21.7487967Z remote: Compressing objects: 20% (38/187)
2021-02-03T05:26:21.7488341Z remote: Compressing objects: 21% (40/187)
2021-02-03T05:26:21.7488839Z remote: Compressing objects: 22% (42/187)
2021-02-03T05:26:21.7489230Z remote: Compressing objects: 23% (44/187)
2021-02-03T05:26:21.7489649Z remote: Compressing objects: 24% (45/187)
2021-02-03T05:26:21.7490190Z remote: Compressing objects: 25% (47/187)
2021-02-03T05:26:21.7490534Z remote: Compressing objects: 26% (49/187)
2021-02-03T05:26:21.7490894Z remote: Compressing objects: 27% (51/187)
2021-02-03T05:26:21.7491256Z remote: Compressing objects: 28% (53/187)
2021-02-03T05:26:21.7491600Z remote: Compressing objects: 29% (55/187)
2021-02-03T05:26:21.7491961Z remote: Compressing objects: 30% (57/187)
2021-02-03T05:26:21.7492323Z remote: Compressing objects: 31% (58/187)
2021-02-03T05:26:21.7492666Z remote: Compressing objects: 32% (60/187)
2021-02-03T05:26:21.7493028Z remote: Compressing objects: 33% (62/187)
2021-02-03T05:26:21.7493378Z remote: Compressing objects: 34% (64/187)
2021-02-03T05:26:21.7493845Z remote: Compressing objects: 35% (66/187)
2021-02-03T05:26:21.7494279Z remote: Compressing objects: 36% (68/187)
2021-02-03T05:26:21.7494623Z remote: Compressing objects: 37% (70/187)
2021-02-03T05:26:21.7495020Z remote: Compressing objects: 38% (72/187)
2021-02-03T05:26:21.7495435Z remote: Compressing objects: 39% (73/187)
2021-02-03T05:26:21.7495781Z remote: Compressing objects: 40% (75/187)
2021-02-03T05:26:21.7496422Z remote: Compressing objects: 41% (77/187)
2021-02-03T05:26:21.7496831Z remote: Compressing objects: 42% (79/187)
2021-02-03T05:26:21.7497232Z remote: Compressing objects: 43% (81/187)
2021-02-03T05:26:21.7497757Z remote: Compressing objects: 44% (83/187)
2021-02-03T05:26:21.7498154Z remote: Compressing objects: 45% (85/187)
2021-02-03T05:26:21.7498547Z remote: Compressing objects: 46% (87/187)
2021-02-03T05:26:21.7498936Z remote: Compressing objects: 47% (88/187)
2021-02-03T05:26:21.7499339Z remote: Compressing objects: 48% (90/187)
2021-02-03T05:26:21.7500081Z remote: Compressing objects: 49% (92/187)
2021-02-03T05:26:21.7500427Z remote: Compressing objects: 50% (94/187)
2021-02-03T05:26:21.7500823Z remote: Compressing objects: 51% (96/187)
2021-02-03T05:26:21.7501252Z remote: Compressing objects: 52% (98/187)
2021-02-03T05:26:21.7501602Z remote: Compressing objects: 53% (100/187)
2021-02-03T05:26:21.7502026Z remote: Compressing objects: 54% (101/187)
2021-02-03T05:26:21.7502429Z remote: Compressing objects: 55% (103/187)
2021-02-03T05:26:21.7502822Z remote: Compressing objects: 56% (105/187)
2021-02-03T05:26:21.7503170Z remote: Compressing objects: 57% (107/187)
2021-02-03T05:26:21.7503569Z remote: Compressing objects: 58% (109/187)
2021-02-03T05:26:21.7503962Z remote: Compressing objects: 59% (111/187)
2021-02-03T05:26:21.7504321Z remote: Compressing objects: 60% (113/187)
2021-02-03T05:26:21.7504737Z remote: Compressing objects: 61% (115/187)
2021-02-03T05:26:21.7505141Z remote: Compressing objects: 62% (116/187)
2021-02-03T05:26:21.7505490Z remote: Compressing objects: 63% (118/187)
2021-02-03T05:26:21.7506066Z remote: Compressing objects: 64% (120/187)
2021-02-03T05:26:21.7506451Z remote: Compressing objects: 65% (122/187)
2021-02-03T05:26:21.7506787Z remote: Compressing objects: 66% (124/187)
2021-02-03T05:26:21.7507168Z remote: Compressing objects: 67% (126/187)
2021-02-03T05:26:21.7507553Z remote: Compressing objects: 68% (128/187)
2021-02-03T05:26:21.7507933Z remote: Compressing objects: 69% (130/187)
2021-02-03T05:26:21.7508439Z remote: Compressing objects: 70% (131/187)
2021-02-03T05:26:21.7508846Z remote: Compressing objects: 71% (133/187)
2021-02-03T05:26:21.7509228Z remote: Compressing objects: 72% (135/187)
2021-02-03T05:26:21.7509651Z remote: Compressing objects: 73% (137/187)
2021-02-03T05:26:21.7510061Z remote: Compressing objects: 74% (139/187)
2021-02-03T05:26:21.7510691Z remote: Compressing objects: 75% (141/187)
2021-02-03T05:26:21.7511041Z remote: Compressing objects: 76% (143/187)
2021-02-03T05:26:21.7511436Z remote: Compressing objects: 77% (144/187)
2021-02-03T05:26:21.7511833Z remote: Compressing objects: 78% (146/187)
2021-02-03T05:26:21.7512227Z remote: Compressing objects: 79% (148/187)
2021-02-03T05:26:21.7512724Z remote: Compressing objects: 80% (150/187)
2021-02-03T05:26:21.7513226Z remote: Compressing objects: 81% (152/187)
2021-02-03T05:26:21.7513612Z remote: Compressing objects: 82% (154/187)
2021-02-03T05:26:21.7513948Z remote: Compressing objects: 83% (156/187)
2021-02-03T05:26:21.7514333Z remote: Compressing objects: 84% (158/187)
2021-02-03T05:26:21.7514724Z remote: Compressing objects: 85% (159/187)
2021-02-03T05:26:21.7515133Z remote: Compressing objects: 86% (161/187)
2021-02-03T05:26:21.7515481Z remote: Compressing objects: 87% (163/187)
2021-02-03T05:26:21.7515866Z remote: Compressing objects: 88% (165/187)
2021-02-03T05:26:21.7516249Z remote: Compressing objects: 89% (167/187)
2021-02-03T05:26:21.7516586Z remote: Compressing objects: 90% (169/187)
2021-02-03T05:26:21.7516968Z remote: Compressing objects: 91% (171/187)
2021-02-03T05:26:21.7517363Z remote: Compressing objects: 92% (173/187)
2021-02-03T05:26:21.7517701Z remote: Compressing objects: 93% (174/187)
2021-02-03T05:26:21.7518089Z remote: Compressing objects: 94% (176/187)
2021-02-03T05:26:21.7518471Z remote: Compressing objects: 95% (178/187)
2021-02-03T05:26:21.7518807Z remote: Compressing objects: 96% (180/187)
2021-02-03T05:26:21.7519192Z remote: Compressing objects: 97% (182/187)
2021-02-03T05:26:21.7519625Z remote: Compressing objects: 98% (184/187)
2021-02-03T05:26:21.7520369Z remote: Compressing objects: 99% (186/187)
2021-02-03T05:26:21.7521424Z remote: Compressing objects: 100% (187/187)
2021-02-03T05:26:21.7522042Z remote: Compressing objects: 100% (187/187), done.
2021-02-03T05:26:21.7522472Z Receiving objects: 0% (1/20300)
2021-02-03T05:26:21.7522802Z Receiving objects: 1% (203/20300)
2021-02-03T05:26:21.7523179Z Receiving objects: 2% (406/20300)
2021-02-03T05:26:21.7523711Z Receiving objects: 3% (609/20300)
2021-02-03T05:26:21.7524026Z Receiving objects: 4% (812/20300)
2021-02-03T05:26:21.7524720Z Receiving objects: 5% (1015/20300)
2021-02-03T05:26:21.7525222Z Receiving objects: 6% (1218/20300)
2021-02-03T05:26:21.7525510Z Receiving objects: 7% (1421/20300)
2021-02-03T05:26:21.7525873Z Receiving objects: 8% (1624/20300)
2021-02-03T05:26:21.7526209Z Receiving objects: 9% (1827/20300)
2021-02-03T05:26:21.7526495Z Receiving objects: 10% (2030/20300)
2021-02-03T05:26:21.7526851Z Receiving objects: 11% (2233/20300)
2021-02-03T05:26:21.7531845Z Receiving objects: 12% (2436/20300)
2021-02-03T05:26:21.7532323Z Receiving objects: 13% (2639/20300)
2021-02-03T05:26:21.7532620Z Receiving objects: 14% (2842/20300)
2021-02-03T05:26:21.7532960Z Receiving objects: 15% (3045/20300)
2021-02-03T05:26:21.7533297Z Receiving objects: 16% (3248/20300)
2021-02-03T05:26:21.7533630Z Receiving objects: 17% (3451/20300), 3.04 MiB | 6.07 MiB/s
2021-02-03T05:26:21.7957251Z Receiving objects: 18% (3654/20300), 3.04 MiB | 6.07 MiB/s
2021-02-03T05:26:21.8086230Z Receiving objects: 19% (3857/20300), 3.04 MiB | 6.07 MiB/s
2021-02-03T05:26:21.8452200Z Receiving objects: 20% (4060/20300), 3.04 MiB | 6.07 MiB/s
2021-02-03T05:26:21.8722243Z Receiving objects: 20% (4166/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:21.8875774Z Receiving objects: 21% (4263/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:21.9511257Z Receiving objects: 22% (4466/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:21.9562321Z Receiving objects: 23% (4669/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:21.9704513Z Receiving objects: 24% (4872/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.0197641Z Receiving objects: 25% (5075/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.0280311Z Receiving objects: 26% (5278/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.0410843Z Receiving objects: 27% (5481/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.0533366Z Receiving objects: 28% (5684/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.0628827Z Receiving objects: 29% (5887/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.0673657Z Receiving objects: 30% (6090/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.0693081Z Receiving objects: 31% (6293/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.0737761Z Receiving objects: 32% (6496/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.0753179Z Receiving objects: 33% (6699/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1075317Z Receiving objects: 34% (6902/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1105822Z Receiving objects: 35% (7105/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1169609Z Receiving objects: 36% (7308/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1187770Z Receiving objects: 37% (7511/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1218293Z Receiving objects: 38% (7714/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1243939Z Receiving objects: 39% (7917/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1254942Z Receiving objects: 40% (8120/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1267709Z Receiving objects: 41% (8323/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1287452Z Receiving objects: 42% (8526/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1297461Z Receiving objects: 43% (8729/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1308333Z Receiving objects: 44% (8932/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1330898Z Receiving objects: 45% (9135/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.1357336Z Receiving objects: 46% (9338/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2699006Z Receiving objects: 47% (9541/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2699541Z Receiving objects: 48% (9744/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2703053Z Receiving objects: 49% (9947/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2718191Z Receiving objects: 50% (10150/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2718802Z Receiving objects: 51% (10353/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2731188Z Receiving objects: 52% (10556/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2739872Z Receiving objects: 53% (10759/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2755827Z Receiving objects: 54% (10962/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2814545Z Receiving objects: 55% (11165/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2823375Z Receiving objects: 56% (11368/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2834164Z Receiving objects: 57% (11571/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2885448Z Receiving objects: 58% (11774/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.2893309Z Receiving objects: 59% (11977/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.3585433Z Receiving objects: 60% (12180/20300), 11.74 MiB | 11.55 MiB/s
2021-02-03T05:26:22.3711411Z Receiving objects: 61% (12383/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.3754216Z Receiving objects: 62% (12586/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.4560711Z Receiving objects: 63% (12789/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.5267089Z Receiving objects: 64% (12992/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.5275839Z Receiving objects: 65% (13195/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6036822Z Receiving objects: 66% (13398/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6043108Z Receiving objects: 67% (13601/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6114931Z Receiving objects: 68% (13804/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6648983Z Receiving objects: 69% (14007/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6678143Z Receiving objects: 70% (14210/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6703835Z Receiving objects: 71% (14413/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6704221Z Receiving objects: 72% (14616/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6711657Z Receiving objects: 73% (14819/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6740460Z Receiving objects: 74% (15022/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6766140Z Receiving objects: 75% (15225/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6782827Z Receiving objects: 76% (15428/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6841343Z Receiving objects: 77% (15631/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6847768Z Receiving objects: 78% (15834/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6857990Z Receiving objects: 79% (16037/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6878917Z Receiving objects: 80% (16240/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6889704Z Receiving objects: 81% (16443/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6906456Z Receiving objects: 82% (16646/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6919798Z Receiving objects: 83% (16849/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6946538Z Receiving objects: 84% (17052/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6959693Z Receiving objects: 85% (17255/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.6980683Z Receiving objects: 86% (17458/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7016418Z Receiving objects: 87% (17661/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7033381Z Receiving objects: 88% (17864/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7054504Z Receiving objects: 89% (18067/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7090742Z Receiving objects: 90% (18270/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7111940Z Receiving objects: 91% (18473/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7138317Z Receiving objects: 92% (18676/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7164978Z Receiving objects: 93% (18879/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7174648Z Receiving objects: 94% (19082/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7220840Z Receiving objects: 95% (19285/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7236010Z Receiving objects: 96% (19488/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7249140Z Receiving objects: 97% (19691/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7261835Z Receiving objects: 98% (19894/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7538027Z Receiving objects: 99% (20097/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7539099Z remote: Total 20300 (delta 157), reused 158 (delta 79), pack-reused 20034
2021-02-03T05:26:22.7554418Z Receiving objects: 100% (20300/20300), 23.46 MiB | 15.47 MiB/s
2021-02-03T05:26:22.7555883Z Receiving objects: 100% (20300/20300), 34.48 MiB | 17.90 MiB/s, done.
2021-02-03T05:26:22.7601195Z Resolving deltas: 0% (0/14758)
2021-02-03T05:26:22.7627549Z Resolving deltas: 1% (148/14758)
2021-02-03T05:26:22.7650986Z Resolving deltas: 2% (296/14758)
2021-02-03T05:26:22.7683822Z Resolving deltas: 3% (443/14758)
2021-02-03T05:26:22.7719200Z Resolving deltas: 4% (591/14758)
2021-02-03T05:26:22.7794613Z Resolving deltas: 5% (738/14758)
2021-02-03T05:26:22.7983721Z Resolving deltas: 6% (886/14758)
2021-02-03T05:26:22.8185538Z Resolving deltas: 7% (1034/14758)
2021-02-03T05:26:22.8288765Z Resolving deltas: 8% (1181/14758)
2021-02-03T05:26:22.8388944Z Resolving deltas: 9% (1329/14758)
2021-02-03T05:26:22.8437838Z Resolving deltas: 10% (1476/14758)
2021-02-03T05:26:22.8456513Z Resolving deltas: 11% (1624/14758)
2021-02-03T05:26:22.8484363Z Resolving deltas: 12% (1771/14758)
2021-02-03T05:26:22.8523565Z Resolving deltas: 13% (1919/14758)
2021-02-03T05:26:22.8650803Z Resolving deltas: 14% (2067/14758)
2021-02-03T05:26:22.8651369Z Resolving deltas: 15% (2214/14758)
2021-02-03T05:26:22.8651869Z Resolving deltas: 16% (2362/14758)
2021-02-03T05:26:22.8652225Z Resolving deltas: 17% (2509/14758)
2021-02-03T05:26:22.8652743Z Resolving deltas: 18% (2657/14758)
2021-02-03T05:26:22.8663656Z Resolving deltas: 19% (2805/14758)
2021-02-03T05:26:22.8673412Z Resolving deltas: 20% (2952/14758)
2021-02-03T05:26:22.8681264Z Resolving deltas: 21% (3100/14758)
2021-02-03T05:26:22.8745916Z Resolving deltas: 22% (3247/14758)
2021-02-03T05:26:22.8759812Z Resolving deltas: 23% (3395/14758)
2021-02-03T05:26:22.8811657Z Resolving deltas: 24% (3542/14758)
2021-02-03T05:26:22.8885974Z Resolving deltas: 25% (3690/14758)
2021-02-03T05:26:22.8934509Z Resolving deltas: 26% (3838/14758)
2021-02-03T05:26:22.8970935Z Resolving deltas: 27% (3985/14758)
2021-02-03T05:26:22.9053205Z Resolving deltas: 28% (4133/14758)
2021-02-03T05:26:22.9130447Z Resolving deltas: 29% (4280/14758)
2021-02-03T05:26:22.9188727Z Resolving deltas: 30% (4428/14758)
2021-02-03T05:26:22.9197101Z Resolving deltas: 31% (4575/14758)
2021-02-03T05:26:22.9225977Z Resolving deltas: 32% (4723/14758)
2021-02-03T05:26:22.9240844Z Resolving deltas: 33% (4871/14758)
2021-02-03T05:26:22.9261163Z Resolving deltas: 34% (5018/14758)
2021-02-03T05:26:22.9406256Z Resolving deltas: 35% (5166/14758)
2021-02-03T05:26:22.9525317Z Resolving deltas: 36% (5313/14758)
2021-02-03T05:26:22.9531294Z Resolving deltas: 37% (5461/14758)
2021-02-03T05:26:22.9537774Z Resolving deltas: 38% (5609/14758)
2021-02-03T05:26:22.9543618Z Resolving deltas: 39% (5756/14758)
2021-02-03T05:26:22.9549808Z Resolving deltas: 40% (5904/14758)
2021-02-03T05:26:22.9561711Z Resolving deltas: 41% (6051/14758)
2021-02-03T05:26:22.9570909Z Resolving deltas: 42% (6199/14758)
2021-02-03T05:26:22.9580415Z Resolving deltas: 43% (6346/14758)
2021-02-03T05:26:22.9586396Z Resolving deltas: 44% (6494/14758)
2021-02-03T05:26:22.9598341Z Resolving deltas: 45% (6642/14758)
2021-02-03T05:26:22.9611582Z Resolving deltas: 46% (6789/14758)
2021-02-03T05:26:22.9622795Z Resolving deltas: 47% (6937/14758)
2021-02-03T05:26:22.9630973Z Resolving deltas: 48% (7084/14758)
2021-02-03T05:26:22.9638161Z Resolving deltas: 49% (7232/14758)
2021-02-03T05:26:22.9645560Z Resolving deltas: 50% (7379/14758)
2021-02-03T05:26:22.9652702Z Resolving deltas: 51% (7527/14758)
2021-02-03T05:26:22.9658722Z Resolving deltas: 52% (7675/14758)
2021-02-03T05:26:22.9665849Z Resolving deltas: 53% (7822/14758)
2021-02-03T05:26:22.9681988Z Resolving deltas: 54% (7970/14758)
2021-02-03T05:26:22.9872590Z Resolving deltas: 55% (8117/14758)
2021-02-03T05:26:22.9873276Z Resolving deltas: 56% (8265/14758)
2021-02-03T05:26:22.9873883Z Resolving deltas: 57% (8413/14758)
2021-02-03T05:26:22.9874447Z Resolving deltas: 58% (8560/14758)
2021-02-03T05:26:22.9925369Z Resolving deltas: 59% (8708/14758)
2021-02-03T05:26:22.9996997Z Resolving deltas: 60% (8855/14758)
2021-02-03T05:26:23.0030901Z Resolving deltas: 61% (9003/14758)
2021-02-03T05:26:23.0037301Z Resolving deltas: 62% (9150/14758)
2021-02-03T05:26:23.0061918Z Resolving deltas: 63% (9298/14758)
2021-02-03T05:26:23.0152576Z Resolving deltas: 64% (9446/14758)
2021-02-03T05:26:23.0211348Z Resolving deltas: 65% (9593/14758)
2021-02-03T05:26:23.0219674Z Resolving deltas: 66% (9741/14758)
2021-02-03T05:26:23.0225481Z Resolving deltas: 67% (9888/14758)
2021-02-03T05:26:23.0233119Z Resolving deltas: 68% (10036/14758)
2021-02-03T05:26:23.0253436Z Resolving deltas: 69% (10184/14758)
2021-02-03T05:26:23.0274366Z Resolving deltas: 70% (10331/14758)
2021-02-03T05:26:23.0303424Z Resolving deltas: 71% (10479/14758)
2021-02-03T05:26:23.0446568Z Resolving deltas: 72% (10626/14758)
2021-02-03T05:26:23.0484946Z Resolving deltas: 73% (10774/14758)
2021-02-03T05:26:23.0551192Z Resolving deltas: 74% (10921/14758)
2021-02-03T05:26:23.0619302Z Resolving deltas: 75% (11069/14758)
2021-02-03T05:26:23.0659700Z Resolving deltas: 76% (11217/14758)
2021-02-03T05:26:23.0670326Z Resolving deltas: 77% (11364/14758)
2021-02-03T05:26:23.0700147Z Resolving deltas: 78% (11512/14758)
2021-02-03T05:26:23.0707256Z Resolving deltas: 79% (11659/14758)
2021-02-03T05:26:23.0718214Z Resolving deltas: 80% (11807/14758)
2021-02-03T05:26:23.0735476Z Resolving deltas: 81% (11954/14758)
2021-02-03T05:26:23.0803155Z Resolving deltas: 82% (12102/14758)
2021-02-03T05:26:23.0832419Z Resolving deltas: 83% (12250/14758)
2021-02-03T05:26:23.0840262Z Resolving deltas: 84% (12397/14758)
2021-02-03T05:26:23.0860701Z Resolving deltas: 85% (12545/14758)
2021-02-03T05:26:23.0873913Z Resolving deltas: 86% (12692/14758)
2021-02-03T05:26:23.0882160Z Resolving deltas: 87% (12840/14758)
2021-02-03T05:26:23.0943124Z Resolving deltas: 88% (12988/14758)
2021-02-03T05:26:23.0978045Z Resolving deltas: 89% (13135/14758)
2021-02-03T05:26:23.0995948Z Resolving deltas: 90% (13283/14758)
2021-02-03T05:26:23.1065419Z Resolving deltas: 91% (13430/14758)
2021-02-03T05:26:23.1112759Z Resolving deltas: 92% (13578/14758)
2021-02-03T05:26:23.1133680Z Resolving deltas: 93% (13725/14758)
2021-02-03T05:26:23.1164856Z Resolving deltas: 94% (13873/14758)
2021-02-03T05:26:23.1207501Z Resolving deltas: 95% (14021/14758)
2021-02-03T05:26:23.1215332Z Resolving deltas: 96% (14168/14758)
2021-02-03T05:26:23.1221894Z Resolving deltas: 97% (14316/14758)
2021-02-03T05:26:23.1230933Z Resolving deltas: 98% (14463/14758)
2021-02-03T05:26:23.1261670Z Resolving deltas: 99% (14611/14758)
2021-02-03T05:26:23.1309801Z Resolving deltas: 100% (14758/14758)
2021-02-03T05:26:23.1310741Z Resolving deltas: 100% (14758/14758), done.
2021-02-03T05:26:23.7031871Z From https://github.com/theislab/scanpy
2021-02-03T05:26:23.7035169Z * [new branch] 1.6.x -> origin/1.6.x
2021-02-03T05:26:23.7038001Z * [new branch] 1.7.x -> origin/1.7.x
2021-02-03T05:26:23.7040584Z * [new branch] batch_pca -> origin/batch_pca
2021-02-03T05:26:23.7042613Z * [new branch] better_rank_genes_plots -> origin/better_rank_genes_plots
2021-02-03T05:26:23.7046324Z * [new branch] bump-anndata-req -> origin/bump-anndata-req
2021-02-03T05:26:23.7048136Z * [new branch] combat_adjusted -> origin/combat_adjusted
2021-02-03T05:26:23.7051786Z * [new branch] d69832a -> origin/d69832a
2021-02-03T05:26:23.7053400Z * [new branch] embedding_density_diff -> origin/embedding_density_diff
2021-02-03T05:26:23.7055316Z * [new branch] falexwolf-patch-3 -> origin/falexwolf-patch-3
2021-02-03T05:26:23.7058170Z * [new branch] fix-h5py -> origin/fix-h5py
2021-02-03T05:26:23.7059702Z * [new branch] fix-paga -> origin/fix-paga
2021-02-03T05:26:23.7061193Z * [new branch] fix_dendrogram -> origin/fix_dendrogram
2021-02-03T05:26:23.7063342Z * [new branch] fix_documentation -> origin/fix_documentation
2021-02-03T05:26:23.7067229Z * [new branch] fix_heatmap -> origin/fix_heatmap
2021-02-03T05:26:23.7068214Z * [new branch] fix_heatmap_tutorial -> origin/fix_heatmap_tutorial
2021-02-03T05:26:23.7070064Z * [new branch] fix_sorting_error_pandas1_2 -> origin/fix_sorting_error_pandas1_2
2021-02-03T05:26:23.7072809Z * [new branch] fixup-927 -> origin/fixup-927
2021-02-03T05:26:23.7074636Z * [new branch] flit -> origin/flit
2021-02-03T05:26:23.7076496Z * [new branch] gh-pages -> origin/gh-pages
2021-02-03T05:26:23.7078879Z * [new branch] giovp-patch-1 -> origin/giovp-patch-1
2021-02-03T05:26:23.7082205Z * [new branch] gokceneraslan-prepare-dataframe-multiindex -> origin/gokceneraslan-prepare-dataframe-multiindex
2021-02-03T05:26:23.7084052Z * [new branch] groupby_index2 -> origin/groupby_index2
2021-02-03T05:26:23.7085003Z * [new branch] heatmap_colormatching -> origin/heatmap_colormatching
2021-02-03T05:26:23.7089329Z * [new branch] highly_variable_genes -> origin/highly_variable_genes
2021-02-03T05:26:23.7091191Z * [new branch] ingest-fix -> origin/ingest-fix
2021-02-03T05:26:23.7092856Z * [new branch] interlinks -> origin/interlinks
2021-02-03T05:26:23.7093567Z * [new branch] kbet -> origin/kbet
2021-02-03T05:26:23.7099399Z * [new branch] marker_gene_overlap_fix -> origin/marker_gene_overlap_fix
2021-02-03T05:26:23.7101646Z * [new branch] master -> origin/master
2021-02-03T05:26:23.7104065Z * [new branch] normalize-scran -> origin/normalize-scran
2021-02-03T05:26:23.7105092Z * [new branch] paga_fix_root -> origin/paga_fix_root
2021-02-03T05:26:23.7106421Z * [new branch] paga_key_added -> origin/paga_key_added
2021-02-03T05:26:23.7107235Z * [new branch] pca_sparse -> origin/pca_sparse
2021-02-03T05:26:23.7108404Z * [new branch] plotting-overhaul -> origin/plotting-overhaul
2021-02-03T05:26:23.7112513Z * [new branch] preserve-formats -> origin/preserve-formats
2021-02-03T05:26:23.7116296Z * [new branch] revert-1105-fix-read_visium -> origin/revert-1105-fix-read_visium
2021-02-03T05:26:23.7117864Z * [new branch] rgg_filter -> origin/rgg_filter
2021-02-03T05:26:23.7120596Z * [new branch] rgg_refactor -> origin/rgg_refactor
2021-02-03T05:26:23.7124582Z * [new branch] scale-anno-mean-std -> origin/scale-anno-mean-std
2021-02-03T05:26:23.7126844Z * [new branch] score_layers -> origin/score_layers
2021-02-03T05:26:23.7129823Z * [new branch] sctransform -> origin/sctransform
2021-02-03T05:26:23.7131606Z * [new branch] separate-static-analysis -> origin/separate-static-analysis
2021-02-03T05:26:23.7133180Z * [new branch] skip-louvain-tests -> origin/skip-louvain-tests
2021-02-03T05:26:23.7135442Z * [new branch] spatial -> origin/spatial
2021-02-03T05:26:23.7140927Z * [new branch] speedup_get_obs_df -> origin/speedup_get_obs_df
2021-02-03T05:26:23.7144175Z * [new branch] update-datasets -> origin/update-datasets
2021-02-03T05:26:23.7148596Z * [new branch] vcenter_v2 -> origin/vcenter_v2
2021-02-03T05:26:23.7152211Z * [new branch] withreplacement -> origin/withreplacement
2021-02-03T05:26:23.7153926Z * [new tag] 0.0 -> 0.0
2021-02-03T05:26:23.7155245Z * [new tag] 0.1 -> 0.1
2021-02-03T05:26:23.7156257Z * [new tag] 0.2 -> 0.2
2021-02-03T05:26:23.7157351Z * [new tag] 0.2.1 -> 0.2.1
2021-02-03T05:26:23.7158096Z * [new tag] 0.2.3 -> 0.2.3
2021-02-03T05:26:23.7158861Z * [new tag] 0.2.3.5 -> 0.2.3.5
2021-02-03T05:26:23.7159774Z * [new tag] 0.2.4 -> 0.2.4
2021-02-03T05:26:23.7160576Z * [new tag] 0.2.5 -> 0.2.5
2021-02-03T05:26:23.7161527Z * [new tag] 0.2.6 -> 0.2.6
2021-02-03T05:26:23.7162814Z * [new tag] 0.2.7 -> 0.2.7
2021-02-03T05:26:23.7163875Z * [new tag] 0.2.8 -> 0.2.8
2021-02-03T05:26:23.7164587Z * [new tag] 0.2.9 -> 0.2.9
2021-02-03T05:26:23.7168500Z * [new tag] 0.2.9.1 -> 0.2.9.1
2021-02-03T05:26:23.7169571Z * [new tag] 0.3 -> 0.3
2021-02-03T05:26:23.7170792Z * [new tag] 0.3.1 -> 0.3.1
2021-02-03T05:26:23.7171739Z * [new tag] 0.3.2 -> 0.3.2
2021-02-03T05:26:23.7172709Z * [new tag] 0.4 -> 0.4
2021-02-03T05:26:23.7173663Z * [new tag] 0.4.1 -> 0.4.1
2021-02-03T05:26:23.7174538Z * [new tag] 0.4.2 -> 0.4.2
2021-02-03T05:26:23.7175380Z * [new tag] 0.4.2.post1 -> 0.4.2.post1
2021-02-03T05:26:23.7176350Z * [new tag] 0.4.2.post2 -> 0.4.2.post2
2021-02-03T05:26:23.7177140Z * [new tag] 0.4.3 -> 0.4.3
2021-02-03T05:26:23.7178076Z * [new tag] 0.4.4 -> 0.4.4
2021-02-03T05:26:23.7179350Z * [new tag] 1.0 -> 1.0
2021-02-03T05:26:23.7180307Z * [new tag] 1.0.1 -> 1.0.1
2021-02-03T05:26:23.7181112Z * [new tag] 1.0.2 -> 1.0.2
2021-02-03T05:26:23.7181912Z * [new tag] 1.0.3 -> 1.0.3
2021-02-03T05:26:23.7182707Z * [new tag] 1.0.4 -> 1.0.4
2021-02-03T05:26:23.7183480Z * [new tag] 1.1 -> 1.1
2021-02-03T05:26:23.7187768Z * [new tag] 1.1a1 -> 1.1a1
2021-02-03T05:26:23.7188877Z * [new tag] 1.1a2 -> 1.1a2
2021-02-03T05:26:23.7189896Z * [new tag] 1.2.0 -> 1.2.0
2021-02-03T05:26:23.7190694Z * [new tag] 1.2.1 -> 1.2.1
2021-02-03T05:26:23.7191501Z * [new tag] 1.2.2 -> 1.2.2
2021-02-03T05:26:23.7192634Z * [new tag] 1.3 -> 1.3
2021-02-03T05:26:23.7193381Z * [new tag] 1.3.1 -> 1.3.1
2021-02-03T05:26:23.7194104Z * [new tag] 1.3.2 -> 1.3.2
2021-02-03T05:26:23.7194852Z * [new tag] 1.3.3 -> 1.3.3
2021-02-03T05:26:23.7196120Z * [new tag] 1.3.4 -> 1.3.4
2021-02-03T05:26:23.7197512Z * [new tag] 1.3.5 -> 1.3.5
2021-02-03T05:26:23.7199287Z * [new tag] 1.3.6 -> 1.3.6
2021-02-03T05:26:23.7200713Z * [new tag] 1.3.7 -> 1.3.7
2021-02-03T05:26:23.7202111Z * [new tag] 1.3.8 -> 1.3.8
2021-02-03T05:26:23.7203725Z * [new tag] 1.4 -> 1.4
2021-02-03T05:26:23.7205056Z * [new tag] 1.4.1 -> 1.4.1
2021-02-03T05:26:23.7205877Z * [new tag] 1.4.2 -> 1.4.2
2021-02-03T05:26:23.7207050Z * [new tag] 1.4.3 -> 1.4.3
2021-02-03T05:26:23.7207771Z * [new tag] 1.4.4 -> 1.4.4
2021-02-03T05:26:23.7208526Z * [new tag] 1.4.4.post1 -> 1.4.4.post1
2021-02-03T05:26:23.7209297Z * [new tag] 1.4.5 -> 1.4.5
2021-02-03T05:26:23.7210052Z * [new tag] 1.4.5.1 -> 1.4.5.1
2021-02-03T05:26:23.7210937Z * [new tag] 1.4.5.post1 -> 1.4.5.post1
2021-02-03T05:26:23.7214302Z * [new tag] 1.4.5.post2 -> 1.4.5.post2
2021-02-03T05:26:23.7214921Z * [new tag] 1.4.5.post3 -> 1.4.5.post3
2021-02-03T05:26:23.7215868Z * [new tag] 1.4.6 -> 1.4.6
2021-02-03T05:26:23.7216452Z * [new tag] 1.5.0 -> 1.5.0
2021-02-03T05:26:23.7217049Z * [new tag] 1.5.0a1 -> 1.5.0a1
2021-02-03T05:26:23.7217648Z * [new tag] 1.5.1 -> 1.5.1
2021-02-03T05:26:23.7218240Z * [new tag] 1.6.0 -> 1.6.0
2021-02-03T05:26:23.7221302Z * [new tag] 1.6.1 -> 1.6.1
2021-02-03T05:26:23.7222151Z * [new tag] 1.7.0rc1 -> 1.7.0rc1
2021-02-03T05:26:23.7222749Z * [new tag] docs -> docs
2021-02-03T05:26:23.7867486Z ##[command]git -c http.extraheader="AUTHORIZATION: basic ***" fetch --force --tags --prune --progress --no-recurse-submodules origin +de0dd7f7a4fb494b789bfddf6b16a54ead9cc585:refs/remotes/origin/de0dd7f7a4fb494b789bfddf6b16a54ead9cc585
2021-02-03T05:26:24.5994203Z From https://github.com/theislab/scanpy
2021-02-03T05:26:24.5996220Z * [new ref] de0dd7f7a4fb494b789bfddf6b16a54ead9cc585 -> origin/de0dd7f7a4fb494b789bfddf6b16a54ead9cc585
2021-02-03T05:26:24.6842528Z ##[command]git checkout --progress --force de0dd7f7a4fb494b789bfddf6b16a54ead9cc585
2021-02-03T05:26:24.7503937Z Note: switching to 'de0dd7f7a4fb494b789bfddf6b16a54ead9cc585'.
2021-02-03T05:26:24.7504132Z
2021-02-03T05:26:24.7504606Z You are in 'detached HEAD' state. You can look around, make experimental
2021-02-03T05:26:24.7504979Z changes and commit them, and you can discard any commits you make in this
2021-02-03T05:26:24.7505346Z state without impacting any branches by switching back to a branch.
2021-02-03T05:26:24.7505519Z
2021-02-03T05:26:24.7505792Z If you want to create a new branch to retain commits you create, you may
2021-02-03T05:26:24.7506335Z do so (now or later) by using -c with the switch command. Example:
2021-02-03T05:26:24.7506535Z
2021-02-03T05:26:24.7506894Z git switch -c <new-branch-name>
2021-02-03T05:26:24.7507025Z
2021-02-03T05:26:24.7507257Z Or undo this operation with:
2021-02-03T05:26:24.7508698Z
2021-02-03T05:26:24.7509497Z git switch -
2021-02-03T05:26:24.7509610Z
2021-02-03T05:26:24.7509918Z Turn off this advice by setting config variable advice.detachedHead to false
2021-02-03T05:26:24.7510304Z
2021-02-03T05:26:24.7510599Z HEAD is now at de0dd7f7 Release note for #1583 and update release date (#1623)
2021-02-03T05:26:24.7619099Z ##[section]Finishing: Checkout theislab/scanpy@master to s
2021-02-03T05:26:24.7647421Z ##[section]Starting: Use Python 3.6
2021-02-03T05:26:24.7654857Z ==============================================================================
2021-02-03T05:26:24.7655516Z Task : Use Python version
2021-02-03T05:26:24.7656203Z Description : Use the specified version of Python from the tool cache, optionally adding it to the PATH
2021-02-03T05:26:24.7656668Z Version : 0.181.0
2021-02-03T05:26:24.7657062Z Author : Microsoft Corporation
2021-02-03T05:26:24.7657913Z Help : https://docs.microsoft.com/azure/devops/pipelines/tasks/tool/use-python-version
2021-02-03T05:26:24.7658700Z ==============================================================================
2021-02-03T05:26:25.1918713Z Found tool in cache: Python 3.6.12 x64
2021-02-03T05:26:25.1944883Z Prepending PATH environment variable with directory: /opt/hostedtoolcache/Python/3.6.12/x64
2021-02-03T05:26:25.1961766Z Prepending PATH environment variable with directory: /opt/hostedtoolcache/Python/3.6.12/x64/bin
2021-02-03T05:26:25.2290680Z ##[section]Finishing: Use Python 3.6
2021-02-03T05:26:25.2314262Z ##[section]Starting: Cache pip packages
2021-02-03T05:26:25.2318681Z ==============================================================================
2021-02-03T05:26:25.2318926Z Task : Cache
2021-02-03T05:26:25.2319156Z Description : Cache files between runs
2021-02-03T05:26:25.2319342Z Version : 2.0.1
2021-02-03T05:26:25.2319562Z Author : Microsoft Corporation
2021-02-03T05:26:25.2319784Z Help : https://aka.ms/pipeline-caching-docs
2021-02-03T05:26:25.2320110Z ==============================================================================
2021-02-03T05:26:25.5724137Z Resolving key:
2021-02-03T05:26:25.5872104Z - "python 3.6" [string]
2021-02-03T05:26:25.5873231Z - "Linux" [string]
2021-02-03T05:26:25.6333245Z - requirements.txt [file] --> 761403218DCB44CB8B1A9AFDFFF253ABE9EB76811371FF00D28282D5F8E5A5F2
2021-02-03T05:26:25.6364108Z Resolved to: "python 3.6"|"Linux"|ya5cptmliwUOapkPLE7Sv0tbR+zNFJr3YErxlae40Iw=
2021-02-03T05:26:25.6424964Z Resolving restore key:
2021-02-03T05:26:25.6425533Z - python [string]
2021-02-03T05:26:25.6425926Z - "Linux" [string]
2021-02-03T05:26:25.6429824Z Resolved to: python|"Linux"|**
2021-02-03T05:26:25.6430162Z Resolving restore key:
2021-02-03T05:26:25.6430648Z - python [string]
2021-02-03T05:26:25.6430962Z Resolved to: python|**
2021-02-03T05:26:27.2698341Z ApplicationInsightsTelemetrySender will correlate events with X-TFS-Session 1c2fd7fc-d7ca-45fe-b92b-f3402121becd
2021-02-03T05:26:28.1812365Z Getting a pipeline cache artifact with one of the following fingerprints:
2021-02-03T05:26:28.1813089Z Fingerprint: `"python 3.6"|"Linux"|ya5cptmliwUOapkPLE7Sv0tbR+zNFJr3YErxlae40Iw=`
2021-02-03T05:26:28.1813612Z Fingerprint: `python|"Linux"|**`
2021-02-03T05:26:28.1814079Z Fingerprint: `python|**`
2021-02-03T05:26:28.6572244Z There is a cache hit: `"python 3.6"|"Linux"|ya5cptmliwUOapkPLE7Sv0tbR+zNFJr3YErxlae40Iw=`
2021-02-03T05:26:28.6574625Z Used scope: 1;f134da54-5b2f-4542-80b9-04f88efc60c2;refs/heads/master;theislab/scanpy
2021-02-03T05:26:28.7481379Z Entry found at fingerprint: `"python 3.6"|"Linux"|ya5cptmliwUOapkPLE7Sv0tbR+zNFJr3YErxlae40Iw=`
2021-02-03T05:26:31.5079403Z Expected size to be downloaded: 995.2 MB
2021-02-03T05:26:31.5102572Z Downloaded 0.0 MB out of 995.2 MB (0%).
2021-02-03T05:26:36.5102462Z Downloaded 287.2 MB out of 995.2 MB (29%).
2021-02-03T05:26:41.5075096Z Downloaded 796.7 MB out of 995.2 MB (80%).
2021-02-03T05:26:44.3013044Z Downloaded 995.2 MB out of 995.2 MB (100%).
2021-02-03T05:26:44.3023340Z
2021-02-03T05:26:44.3023751Z Download statistics:
2021-02-03T05:26:44.3024071Z Total Content: 995.2 MB
2021-02-03T05:26:44.3024408Z Physical Content Downloaded: 992.8 MB
2021-02-03T05:26:44.3024748Z Compression Saved: 2.3 MB
2021-02-03T05:26:44.3025066Z Local Caching Saved: 0.0 MB
2021-02-03T05:26:44.3025991Z Chunks Downloaded: 12,867
2021-02-03T05:26:44.3026341Z Nodes Downloaded: 26
2021-02-03T05:26:44.3026499Z
2021-02-03T05:26:44.3039528Z Process exit code: 0
2021-02-03T05:26:44.3640503Z Cache restored.
2021-02-03T05:26:45.4883370Z ApplicationInsightsTelemetrySender correlated 2 events with X-TFS-Session 1c2fd7fc-d7ca-45fe-b92b-f3402121becd
2021-02-03T05:26:45.5095781Z ##[section]Finishing: Cache pip packages
2021-02-03T05:26:45.5135193Z ##[section]Starting: Set env
2021-02-03T05:26:45.5142423Z ==============================================================================
2021-02-03T05:26:45.5142718Z Task : Command line
2021-02-03T05:26:45.5143024Z Description : Run a command line script using Bash on Linux and macOS and cmd.exe on Windows
2021-02-03T05:26:45.5143442Z Version : 2.178.0
2021-02-03T05:26:45.5143668Z Author : Microsoft Corporation
2021-02-03T05:26:45.5143960Z Help : https://docs.microsoft.com/azure/devops/pipelines/tasks/utility/command-line
2021-02-03T05:26:45.5144309Z ==============================================================================
2021-02-03T05:26:53.0834983Z Generating script.
2021-02-03T05:26:53.0844478Z ========================== Starting Command Output ===========================
2021-02-03T05:26:53.0869094Z [command]/bin/bash --noprofile --norc /home/vsts/work/_temp/35f157d0-5f4e-4be3-b071-3e13a518be21.sh
2021-02-03T05:26:53.0927091Z agg
2021-02-03T05:26:53.1003976Z ##[section]Finishing: Set env
2021-02-03T05:26:53.1027204Z ##[section]Starting: Install dependencies
2021-02-03T05:26:53.1034985Z ==============================================================================
2021-02-03T05:26:53.1035658Z Task : Command line
2021-02-03T05:26:53.1035965Z Description : Run a command line script using Bash on Linux and macOS and cmd.exe on Windows
2021-02-03T05:26:53.1036254Z Version : 2.178.0
2021-02-03T05:26:53.1036459Z Author : Microsoft Corporation
2021-02-03T05:26:53.1036780Z Help : https://docs.microsoft.com/azure/devops/pipelines/tasks/utility/command-line
2021-02-03T05:26:53.1037117Z ==============================================================================
2021-02-03T05:26:53.2361509Z Generating script.
2021-02-03T05:26:53.2365434Z ========================== Starting Command Output ===========================
2021-02-03T05:26:53.2390790Z [command]/bin/bash --noprofile --norc /home/vsts/work/_temp/f9ef2270-cbfb-44e1-8c10-dbd12d182e13.sh
2021-02-03T05:26:57.9048351Z Requirement already satisfied: pip in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (20.3.4)
2021-02-03T05:26:58.1953660Z Collecting pip
2021-02-03T05:26:58.2041457Z Using cached pip-21.0.1-py3-none-any.whl (1.5 MB)
2021-02-03T05:26:58.2615726Z Installing collected packages: pip
2021-02-03T05:26:58.2616385Z Attempting uninstall: pip
2021-02-03T05:26:58.2619973Z Found existing installation: pip 20.3.4
2021-02-03T05:26:58.4191538Z Uninstalling pip-20.3.4:
2021-02-03T05:26:58.4583523Z Successfully uninstalled pip-20.3.4
2021-02-03T05:26:59.3057734Z Successfully installed pip-21.0.1
2021-02-03T05:26:59.9006751Z Collecting pytest-cov
2021-02-03T05:26:59.9043468Z Using cached pytest_cov-2.11.1-py2.py3-none-any.whl (20 kB)
2021-02-03T05:27:00.0428500Z Collecting wheel
2021-02-03T05:27:00.0456591Z Using cached wheel-0.36.2-py2.py3-none-any.whl (35 kB)
2021-02-03T05:27:00.2670197Z Collecting pytest>=4.6
2021-02-03T05:27:00.2709579Z Using cached pytest-6.2.2-py3-none-any.whl (280 kB)
2021-02-03T05:27:00.8749974Z Collecting coverage>=5.2.1
2021-02-03T05:27:00.8783405Z Using cached coverage-5.4-cp36-cp36m-manylinux2010_x86_64.whl (240 kB)
2021-02-03T05:27:01.0387381Z Collecting importlib-metadata>=0.12
2021-02-03T05:27:01.0415573Z Using cached importlib_metadata-3.4.0-py3-none-any.whl (10 kB)
2021-02-03T05:27:01.1572845Z Collecting packaging
2021-02-03T05:27:01.1608994Z Using cached packaging-20.9-py2.py3-none-any.whl (40 kB)
2021-02-03T05:27:01.2040010Z Collecting attrs>=19.2.0
2021-02-03T05:27:01.2066290Z Using cached attrs-20.3.0-py2.py3-none-any.whl (49 kB)
2021-02-03T05:27:01.2640572Z Collecting py>=1.8.2
2021-02-03T05:27:01.2672444Z Using cached py-1.10.0-py2.py3-none-any.whl (97 kB)
2021-02-03T05:27:01.2995383Z Collecting toml
2021-02-03T05:27:01.3028597Z Using cached toml-0.10.2-py2.py3-none-any.whl (16 kB)
2021-02-03T05:27:01.3443753Z Collecting pluggy<1.0.0a1,>=0.12
2021-02-03T05:27:01.3470182Z Using cached pluggy-0.13.1-py2.py3-none-any.whl (18 kB)
2021-02-03T05:27:01.3709269Z Collecting iniconfig
2021-02-03T05:27:01.3742434Z Using cached iniconfig-1.1.1-py2.py3-none-any.whl (5.0 kB)
2021-02-03T05:27:01.5029963Z Collecting zipp>=0.5
2021-02-03T05:27:01.5063968Z Using cached zipp-3.4.0-py3-none-any.whl (5.2 kB)
2021-02-03T05:27:01.5437180Z Collecting typing-extensions>=3.6.4
2021-02-03T05:27:01.5460908Z Using cached typing_extensions-3.7.4.3-py3-none-any.whl (22 kB)
2021-02-03T05:27:01.7437058Z Collecting pyparsing>=2.0.2
2021-02-03T05:27:01.7467312Z Using cached pyparsing-2.4.7-py2.py3-none-any.whl (67 kB)
2021-02-03T05:27:01.8945788Z Installing collected packages: zipp, typing-extensions, pyparsing, importlib-metadata, toml, py, pluggy, packaging, iniconfig, attrs, pytest, coverage, wheel, pytest-cov
2021-02-03T05:27:02.4572962Z Successfully installed attrs-20.3.0 coverage-5.4 importlib-metadata-3.4.0 iniconfig-1.1.1 packaging-20.9 pluggy-0.13.1 py-1.10.0 pyparsing-2.4.7 pytest-6.2.2 pytest-cov-2.11.1 toml-0.10.2 typing-extensions-3.7.4.3 wheel-0.36.2 zipp-3.4.0
2021-02-03T05:27:02.9202231Z Obtaining file:///home/vsts/work/1/s
2021-02-03T05:27:02.9643983Z Installing build dependencies: started
2021-02-03T05:27:05.4106717Z Installing build dependencies: finished with status 'done'
2021-02-03T05:27:05.4113938Z Getting requirements to build wheel: started
2021-02-03T05:27:05.7540205Z Getting requirements to build wheel: finished with status 'done'
2021-02-03T05:27:05.7572229Z Preparing wheel metadata: started
2021-02-03T05:27:06.9737372Z Preparing wheel metadata: finished with status 'done'
2021-02-03T05:27:07.2354748Z Collecting statsmodels>=0.10.0rc2
2021-02-03T05:27:07.2685213Z Downloading statsmodels-0.12.2-cp36-cp36m-manylinux1_x86_64.whl (9.5 MB)
2021-02-03T05:27:07.9024200Z Collecting scikit-learn>=0.21.2
2021-02-03T05:27:07.9587133Z Using cached scikit_learn-0.24.1-cp36-cp36m-manylinux2010_x86_64.whl (22.2 MB)
2021-02-03T05:27:08.5160899Z Collecting pandas>=0.21
2021-02-03T05:27:08.5409134Z Using cached pandas-1.1.5-cp36-cp36m-manylinux1_x86_64.whl (9.5 MB)
2021-02-03T05:27:09.2582602Z Collecting numpy>=1.17.0
2021-02-03T05:27:09.2925343Z Using cached numpy-1.19.5-cp36-cp36m-manylinux2010_x86_64.whl (14.8 MB)
2021-02-03T05:27:09.4982709Z Collecting joblib
2021-02-03T05:27:09.5016758Z Using cached joblib-1.0.0-py3-none-any.whl (302 kB)
2021-02-03T05:27:09.5348499Z Collecting patsy
2021-02-03T05:27:09.5382039Z Using cached patsy-0.5.1-py2.py3-none-any.whl (231 kB)
2021-02-03T05:27:09.8797934Z Collecting scipy>=1.4
2021-02-03T05:27:09.9415412Z Using cached scipy-1.5.4-cp36-cp36m-manylinux1_x86_64.whl (25.9 MB)
2021-02-03T05:27:10.1951972Z Collecting legacy-api-wrap
2021-02-03T05:27:10.1982230Z Using cached legacy_api_wrap-1.2-py3-none-any.whl (37 kB)
2021-02-03T05:27:10.2000894Z Requirement already satisfied: packaging in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from scanpy==1.7.0rc2.dev21+gde0dd7f7) (20.9)
2021-02-03T05:27:10.4638383Z Collecting matplotlib>=3.1.2
2021-02-03T05:27:10.4901884Z Using cached matplotlib-3.3.4-cp36-cp36m-manylinux1_x86_64.whl (11.5 MB)
2021-02-03T05:27:10.6601698Z Collecting h5py>=2.10.0
2021-02-03T05:27:10.6724854Z Using cached h5py-3.1.0-cp36-cp36m-manylinux1_x86_64.whl (4.0 MB)
2021-02-03T05:27:10.7301469Z Collecting seaborn
2021-02-03T05:27:10.7332617Z Using cached seaborn-0.11.1-py3-none-any.whl (285 kB)
2021-02-03T05:27:10.8395507Z Collecting sinfo
2021-02-03T05:27:10.8396947Z Using cached sinfo-0.3.1-py3-none-any.whl
2021-02-03T05:27:10.9665660Z Collecting natsort
2021-02-03T05:27:10.9702569Z Using cached natsort-7.1.1-py3-none-any.whl (35 kB)
2021-02-03T05:27:11.1983944Z Collecting numba>=0.41.0
2021-02-03T05:27:11.2047486Z Using cached numba-0.52.0-cp36-cp36m-manylinux2014_x86_64.whl (3.1 MB)
2021-02-03T05:27:11.3070607Z Collecting tables
2021-02-03T05:27:11.3136092Z Using cached tables-3.6.1-cp36-cp36m-manylinux1_x86_64.whl (4.3 MB)
2021-02-03T05:27:11.3933575Z Collecting anndata>=0.7.4
2021-02-03T05:27:11.3963289Z Using cached anndata-0.7.5-py3-none-any.whl (119 kB)
2021-02-03T05:27:11.6830434Z Collecting tqdm
2021-02-03T05:27:11.6864564Z Using cached tqdm-4.56.0-py2.py3-none-any.whl (72 kB)
2021-02-03T05:27:11.7494651Z Collecting networkx>=2.3
2021-02-03T05:27:11.7537562Z Using cached networkx-2.5-py3-none-any.whl (1.6 MB)
2021-02-03T05:27:11.8746617Z Collecting umap-learn>=0.3.10
2021-02-03T05:27:11.8749188Z Using cached umap_learn-0.5.0-py3-none-any.whl
2021-02-03T05:27:11.8769982Z Requirement already satisfied: importlib-metadata>=0.7 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from scanpy==1.7.0rc2.dev21+gde0dd7f7) (3.4.0)
2021-02-03T05:27:11.8783492Z Requirement already satisfied: pytest>=4.4 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from scanpy==1.7.0rc2.dev21+gde0dd7f7) (6.2.2)
2021-02-03T05:27:11.9829209Z Collecting profimp
2021-02-03T05:27:11.9832140Z Using cached profimp-0.1.0-py3-none-any.whl
2021-02-03T05:27:12.1237542Z Collecting pytest-nunit
2021-02-03T05:27:12.1264532Z Using cached pytest_nunit-0.6.0-py3-none-any.whl (14 kB)
2021-02-03T05:27:12.8595598Z Collecting fsspec
2021-02-03T05:27:12.8597733Z Using cached fsspec-0.8.5-py3-none-any.whl (98 kB)
2021-02-03T05:27:12.8598357Z Collecting zappy
2021-02-03T05:27:12.8599555Z Using cached zappy-0.2.0-py3-none-any.whl
2021-02-03T05:27:12.8599891Z Collecting dask[array]!=2.17.0
2021-02-03T05:27:12.8600395Z Using cached dask-2021.1.1-py3-none-any.whl (891 kB)
2021-02-03T05:27:12.8600691Z Collecting zarr
2021-02-03T05:27:12.8601288Z Using cached zarr-2.6.1-py3-none-any.whl (132 kB)
2021-02-03T05:27:12.8601587Z Collecting leidenalg
2021-02-03T05:27:12.8602080Z Using cached leidenalg-0.8.3-cp36-cp36m-manylinux2010_x86_64.whl (2.4 MB)
2021-02-03T05:27:12.8861623Z Collecting python-igraph
2021-02-03T05:27:12.8928213Z Using cached python_igraph-0.8.3-cp36-cp36m-manylinux2010_x86_64.whl (3.2 MB)
2021-02-03T05:27:13.0178255Z Collecting scrublet
2021-02-03T05:27:13.0210364Z Using cached scrublet-0.2.3-py3-none-any.whl (15 kB)
2021-02-03T05:27:13.1349643Z Collecting magic-impute>=2.0
2021-02-03T05:27:13.1376013Z Using cached magic_impute-2.0.4-py3-none-any.whl (16 kB)
2021-02-03T05:27:13.2510498Z Collecting scanorama
2021-02-03T05:27:13.2540086Z Using cached scanorama-1.7-py3-none-any.whl (22 kB)
2021-02-03T05:27:13.3755903Z Collecting scvi==0.6.7
2021-02-03T05:27:13.3785477Z Using cached scvi-0.6.7-py2.py3-none-any.whl (158 kB)
2021-02-03T05:27:13.5082496Z Collecting louvain!=0.6.2,>=0.6
2021-02-03T05:27:13.5133379Z Using cached louvain-0.7.0-cp36-cp36m-manylinux2010_x86_64.whl (2.1 MB)
2021-02-03T05:27:13.5509436Z Collecting pytoml
2021-02-03T05:27:13.5545175Z Using cached pytoml-0.1.21-py2.py3-none-any.whl (8.5 kB)
2021-02-03T05:27:13.5976258Z Collecting black>=20.8b1
2021-02-03T05:27:13.5977722Z Using cached black-20.8b1-py3-none-any.whl
2021-02-03T05:27:13.8059894Z Collecting setuptools-scm
2021-02-03T05:27:13.8091241Z Using cached setuptools_scm-5.0.1-py2.py3-none-any.whl (28 kB)
2021-02-03T05:27:13.9205487Z Collecting harmonypy
2021-02-03T05:27:13.9239955Z Using cached harmonypy-0.0.5-py3-none-any.whl (20 kB)
2021-02-03T05:27:14.0862515Z Collecting sphinx-autodoc-typehints
2021-02-03T05:27:14.0893738Z Using cached sphinx_autodoc_typehints-1.11.1-py3-none-any.whl (8.7 kB)
2021-02-03T05:27:14.1439386Z Collecting sphinx-rtd-theme>=0.3.1
2021-02-03T05:27:14.1501690Z Using cached sphinx_rtd_theme-0.5.1-py2.py3-none-any.whl (2.8 MB)
2021-02-03T05:27:14.3007007Z Collecting scanpydoc>=0.5
2021-02-03T05:27:14.3042073Z Using cached scanpydoc-0.5.5-py3-none-any.whl (28 kB)
2021-02-03T05:27:14.3084863Z Requirement already satisfied: typing-extensions in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from scanpy==1.7.0rc2.dev21+gde0dd7f7) (3.7.4.3)
2021-02-03T05:27:14.4536956Z Collecting sphinx>=3.2
2021-02-03T05:27:14.4601788Z Using cached Sphinx-3.4.3-py3-none-any.whl (2.9 MB)
2021-02-03T05:27:14.6335320Z Collecting torch>=1.3
2021-02-03T05:27:16.4407806Z Using cached torch-1.7.1-cp36-cp36m-manylinux1_x86_64.whl (776.8 MB)
2021-02-03T05:27:23.3412480Z Collecting dataclasses
2021-02-03T05:27:23.3438709Z Using cached dataclasses-0.8-py3-none-any.whl (19 kB)
2021-02-03T05:27:23.3986150Z Collecting scikit-misc>=0.1.3
2021-02-03T05:27:23.4173575Z Using cached scikit_misc-0.1.3-cp36-cp36m-manylinux1_x86_64.whl (8.7 MB)
2021-02-03T05:27:23.4985092Z Collecting xlrd>=1.2.0
2021-02-03T05:27:23.5014015Z Using cached xlrd-2.0.1-py2.py3-none-any.whl (96 kB)
2021-02-03T05:27:23.5254030Z Collecting hyperopt==0.1.2
2021-02-03T05:27:23.5280116Z Using cached hyperopt-0.1.2-py3-none-any.whl (115 kB)
2021-02-03T05:27:23.7037855Z Collecting six
2021-02-03T05:27:23.7065485Z Using cached six-1.15.0-py2.py3-none-any.whl (10 kB)
2021-02-03T05:27:23.7415054Z Collecting future
2021-02-03T05:27:23.7415703Z Using cached future-0.18.2-py3-none-any.whl
2021-02-03T05:27:24.4238079Z Collecting pymongo
2021-02-03T05:27:24.4349664Z Downloading pymongo-3.11.3-cp36-cp36m-manylinux2014_x86_64.whl (509 kB)
2021-02-03T05:27:24.5533860Z Requirement already satisfied: toml>=0.10.1 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from black>=20.8b1->scanpy==1.7.0rc2.dev21+gde0dd7f7) (0.10.2)
2021-02-03T05:27:24.5809729Z Collecting appdirs
2021-02-03T05:27:24.5838657Z Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
2021-02-03T05:27:24.7155530Z Collecting typed-ast>=1.4.0
2021-02-03T05:27:24.7192311Z Using cached typed_ast-1.4.2-cp36-cp36m-manylinux1_x86_64.whl (743 kB)
2021-02-03T05:27:25.5650178Z Collecting regex>=2020.1.8
2021-02-03T05:27:25.5694943Z Using cached regex-2020.11.13-cp36-cp36m-manylinux2014_x86_64.whl (723 kB)
2021-02-03T05:27:25.5940860Z Collecting mypy-extensions>=0.4.3
2021-02-03T05:27:25.5971073Z Using cached mypy_extensions-0.4.3-py2.py3-none-any.whl (4.5 kB)
2021-02-03T05:27:25.6394308Z Collecting click>=7.1.2
2021-02-03T05:27:25.6422420Z Using cached click-7.1.2-py2.py3-none-any.whl (82 kB)
2021-02-03T05:27:25.6703197Z Collecting pathspec<1,>=0.6
2021-02-03T05:27:25.6733704Z Using cached pathspec-0.8.1-py2.py3-none-any.whl (28 kB)
2021-02-03T05:27:25.8417041Z Collecting pyyaml
2021-02-03T05:27:25.8455747Z Using cached PyYAML-5.4.1-cp36-cp36m-manylinux1_x86_64.whl (640 kB)
2021-02-03T05:27:25.8916543Z Collecting toolz>=0.8.2
2021-02-03T05:27:25.8942630Z Using cached toolz-0.11.1-py3-none-any.whl (55 kB)
2021-02-03T05:27:25.9900986Z Collecting cached-property
2021-02-03T05:27:25.9934369Z Using cached cached_property-1.5.2-py2.py3-none-any.whl (7.6 kB)
2021-02-03T05:27:26.0194391Z Requirement already satisfied: zipp>=0.5 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from importlib-metadata>=0.7->scanpy==1.7.0rc2.dev21+gde0dd7f7) (3.4.0)
2021-02-03T05:27:26.1552415Z Collecting graphtools>=1.4.0
2021-02-03T05:27:26.1581103Z Using cached graphtools-1.5.2-py3-none-any.whl (45 kB)
2021-02-03T05:27:26.2606812Z Collecting tasklogger>=1.0.0
2021-02-03T05:27:26.2630837Z Using cached tasklogger-1.0.0-py3-none-any.whl (14 kB)
2021-02-03T05:27:26.4108759Z Collecting scprep>=1.0
2021-02-03T05:27:26.4140186Z Using cached scprep-1.0.12-py3-none-any.whl (100 kB)
2021-02-03T05:27:26.5425007Z Collecting Deprecated
2021-02-03T05:27:26.5449374Z Using cached Deprecated-1.2.11-py2.py3-none-any.whl (9.1 kB)
2021-02-03T05:27:26.5756639Z Collecting pygsp>=0.5.1
2021-02-03T05:27:26.5805303Z Using cached PyGSP-0.5.1-py2.py3-none-any.whl (1.8 MB)
2021-02-03T05:27:26.6206897Z Collecting cycler>=0.10
2021-02-03T05:27:26.6236462Z Using cached cycler-0.10.0-py2.py3-none-any.whl (6.5 kB)
2021-02-03T05:27:26.6258785Z Requirement already satisfied: pyparsing!=2.0.4,!=2.1.2,!=2.1.6,>=2.0.3 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from matplotlib>=3.1.2->scanpy==1.7.0rc2.dev21+gde0dd7f7) (2.4.7)
2021-02-03T05:27:26.7022108Z Collecting python-dateutil>=2.1
2021-02-03T05:27:26.7058886Z Using cached python_dateutil-2.8.1-py2.py3-none-any.whl (227 kB)
2021-02-03T05:27:26.7856553Z Collecting kiwisolver>=1.0.1
2021-02-03T05:27:26.7905212Z Using cached kiwisolver-1.3.1-cp36-cp36m-manylinux1_x86_64.whl (1.1 MB)
2021-02-03T05:27:31.1751548Z Collecting pillow>=6.2.0
2021-02-03T05:27:31.1807487Z Using cached Pillow-8.1.0-cp36-cp36m-manylinux1_x86_64.whl (2.2 MB)
2021-02-03T05:27:34.7005346Z Collecting decorator>=4.3.0
2021-02-03T05:27:34.7037045Z Using cached decorator-4.4.2-py2.py3-none-any.whl (9.2 kB)
2021-02-03T05:27:34.7250648Z Requirement already satisfied: setuptools in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from numba>=0.41.0->scanpy==1.7.0rc2.dev21+gde0dd7f7) (40.6.2)
2021-02-03T05:27:35.0950848Z Collecting llvmlite<0.36,>=0.35.0
2021-02-03T05:27:35.1478052Z Using cached llvmlite-0.35.0-cp36-cp36m-manylinux2010_x86_64.whl (25.3 MB)
2021-02-03T05:27:35.5297872Z Collecting pytz>=2017.2
2021-02-03T05:27:35.5339060Z Using cached pytz-2021.1-py2.py3-none-any.whl (510 kB)
2021-02-03T05:27:35.6625183Z Requirement already satisfied: iniconfig in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from pytest>=4.4->scanpy==1.7.0rc2.dev21+gde0dd7f7) (1.1.1)
2021-02-03T05:27:35.6636250Z Requirement already satisfied: attrs>=19.2.0 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from pytest>=4.4->scanpy==1.7.0rc2.dev21+gde0dd7f7) (20.3.0)
2021-02-03T05:27:35.6646546Z Requirement already satisfied: py>=1.8.2 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from pytest>=4.4->scanpy==1.7.0rc2.dev21+gde0dd7f7) (1.10.0)
2021-02-03T05:27:35.6661260Z Requirement already satisfied: pluggy<1.0.0a1,>=0.12 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from pytest>=4.4->scanpy==1.7.0rc2.dev21+gde0dd7f7) (0.13.1)
2021-02-03T05:27:35.8002784Z Collecting texttable>=1.6.2
2021-02-03T05:27:35.8033157Z Using cached texttable-1.6.3-py2.py3-none-any.whl (10 kB)
2021-02-03T05:27:35.8710010Z Collecting get_version
2021-02-03T05:27:35.8738328Z Using cached get_version-2.1-py3-none-any.whl (43 kB)
2021-02-03T05:27:35.9734702Z Collecting threadpoolctl>=2.0.0
2021-02-03T05:27:35.9767570Z Using cached threadpoolctl-2.1.0-py3-none-any.whl (12 kB)
2021-02-03T05:27:36.2105080Z Collecting sphinxcontrib-jsmath
2021-02-03T05:27:36.2138304Z Using cached sphinxcontrib_jsmath-1.0.1-py2.py3-none-any.whl (5.1 kB)
2021-02-03T05:27:36.2532182Z Collecting docutils>=0.12
2021-02-03T05:27:36.2570951Z Using cached docutils-0.16-py2.py3-none-any.whl (548 kB)
2021-02-03T05:27:36.2875953Z Collecting sphinxcontrib-qthelp
2021-02-03T05:27:36.2906433Z Using cached sphinxcontrib_qthelp-1.0.3-py2.py3-none-any.whl (90 kB)
2021-02-03T05:27:36.3177721Z Collecting sphinxcontrib-htmlhelp
2021-02-03T05:27:36.3219105Z Using cached sphinxcontrib_htmlhelp-1.0.3-py2.py3-none-any.whl (96 kB)
2021-02-03T05:27:36.3584365Z Collecting alabaster<0.8,>=0.7
2021-02-03T05:27:36.3611764Z Using cached alabaster-0.7.12-py2.py3-none-any.whl (14 kB)
2021-02-03T05:27:36.5404797Z Collecting requests>=2.5.0
2021-02-03T05:27:36.5436569Z Using cached requests-2.25.1-py2.py3-none-any.whl (61 kB)
2021-02-03T05:27:36.5703787Z Collecting sphinxcontrib-devhelp
2021-02-03T05:27:36.5740746Z Using cached sphinxcontrib_devhelp-1.0.2-py2.py3-none-any.whl (84 kB)
2021-02-03T05:27:36.5984995Z Collecting sphinxcontrib-applehelp
2021-02-03T05:27:36.6025018Z Using cached sphinxcontrib_applehelp-1.0.2-py2.py3-none-any.whl (121 kB)
2021-02-03T05:27:36.6674620Z Collecting babel>=1.3
2021-02-03T05:27:36.6891951Z Using cached Babel-2.9.0-py2.py3-none-any.whl (8.8 MB)
2021-02-03T05:27:36.7849338Z Collecting imagesize
2021-02-03T05:27:36.7880537Z Using cached imagesize-1.2.0-py2.py3-none-any.whl (4.8 kB)
2021-02-03T05:27:36.8581906Z Collecting Jinja2>=2.3
2021-02-03T05:27:36.8615873Z Using cached Jinja2-2.11.3-py2.py3-none-any.whl (125 kB)
2021-02-03T05:27:36.8888984Z Collecting snowballstemmer>=1.1
2021-02-03T05:27:36.8924253Z Using cached snowballstemmer-2.1.0-py2.py3-none-any.whl (93 kB)
2021-02-03T05:27:36.9767105Z Collecting Pygments>=2.0
2021-02-03T05:27:36.9807015Z Using cached Pygments-2.7.4-py3-none-any.whl (950 kB)
2021-02-03T05:27:37.0138170Z Collecting sphinxcontrib-serializinghtml
2021-02-03T05:27:37.0173223Z Using cached sphinxcontrib_serializinghtml-1.1.4-py2.py3-none-any.whl (89 kB)
2021-02-03T05:27:37.1657105Z Collecting MarkupSafe>=0.23
2021-02-03T05:27:37.1685823Z Using cached MarkupSafe-1.1.1-cp36-cp36m-manylinux2010_x86_64.whl (32 kB)
2021-02-03T05:27:37.2488604Z Collecting chardet<5,>=3.0.2
2021-02-03T05:27:37.2513785Z Using cached chardet-4.0.0-py2.py3-none-any.whl (178 kB)
2021-02-03T05:27:37.3245357Z Collecting certifi>=2017.4.17
2021-02-03T05:27:37.3270282Z Using cached certifi-2020.12.5-py2.py3-none-any.whl (147 kB)
2021-02-03T05:27:37.3900737Z Collecting idna<3,>=2.5
2021-02-03T05:27:37.3925471Z Using cached idna-2.10-py2.py3-none-any.whl (58 kB)
2021-02-03T05:27:37.4992640Z Collecting urllib3<1.27,>=1.21.1
2021-02-03T05:27:37.5021330Z Using cached urllib3-1.26.3-py2.py3-none-any.whl (137 kB)
2021-02-03T05:27:37.8943271Z Collecting pynndescent>=0.5
2021-02-03T05:27:37.8945325Z Using cached pynndescent-0.5.1-py3-none-any.whl
2021-02-03T05:27:38.1229302Z Collecting wrapt<2,>=1.10
2021-02-03T05:27:38.1230196Z Using cached wrapt-1.12.1-cp36-cp36m-linux_x86_64.whl
2021-02-03T05:27:38.5474171Z Collecting pbr!=2.1.0,>=2.0.0
2021-02-03T05:27:38.5507159Z Using cached pbr-5.5.1-py2.py3-none-any.whl (106 kB)
2021-02-03T05:27:38.7401856Z Collecting intervaltree==2.1.0
2021-02-03T05:27:38.7403177Z Using cached intervaltree-2.1.0-py3-none-any.whl
2021-02-03T05:27:38.7610920Z Collecting geosketch>=1.0
2021-02-03T05:27:38.7639671Z Using cached geosketch-1.2-py3-none-any.whl (8.2 kB)
2021-02-03T05:27:38.8637197Z Collecting fbpca>=1.0
2021-02-03T05:27:38.8638217Z Using cached fbpca-1.0-py3-none-any.whl
2021-02-03T05:27:38.8943144Z Collecting annoy>=1.11.5
2021-02-03T05:27:38.8944444Z Using cached annoy-1.17.0-cp36-cp36m-linux_x86_64.whl
2021-02-03T05:27:38.9837210Z Collecting sortedcontainers
2021-02-03T05:27:38.9863251Z Using cached sortedcontainers-2.3.0-py2.py3-none-any.whl (29 kB)
2021-02-03T05:27:39.1951507Z Collecting scikit-image
2021-02-03T05:27:39.2175579Z Using cached scikit_image-0.17.2-cp36-cp36m-manylinux1_x86_64.whl (12.4 MB)
2021-02-03T05:27:39.8803104Z Collecting cython
2021-02-03T05:27:39.8894079Z Using cached Cython-0.29.21-cp36-cp36m-manylinux1_x86_64.whl (2.0 MB)
2021-02-03T05:27:40.1753501Z Collecting PyWavelets>=1.1.1
2021-02-03T05:27:40.1859540Z Using cached PyWavelets-1.1.1-cp36-cp36m-manylinux1_x86_64.whl (4.4 MB)
2021-02-03T05:27:40.2568150Z Collecting imageio>=2.3.0
2021-02-03T05:27:40.2630795Z Using cached imageio-2.9.0-py3-none-any.whl (3.3 MB)
2021-02-03T05:27:40.3901248Z Collecting tifffile>=2019.7.26
2021-02-03T05:27:40.3932202Z Using cached tifffile-2020.9.3-py3-none-any.whl (148 kB)
2021-02-03T05:27:40.7418328Z Collecting stdlib-list
2021-02-03T05:27:40.7450415Z Using cached stdlib_list-0.8.0-py3-none-any.whl (63 kB)
2021-02-03T05:27:41.2086705Z Collecting numexpr>=2.6.2
2021-02-03T05:27:41.2121677Z Using cached numexpr-2.7.2-cp36-cp36m-manylinux2010_x86_64.whl (469 kB)
2021-02-03T05:27:41.3616772Z Collecting numcodecs>=0.6.4
2021-02-03T05:27:41.3725611Z Using cached numcodecs-0.7.3-cp36-cp36m-manylinux2010_x86_64.whl (5.8 MB)
2021-02-03T05:27:41.4523691Z Collecting fasteners
2021-02-03T05:27:41.4559887Z Using cached fasteners-0.16-py2.py3-none-any.whl (28 kB)
2021-02-03T05:27:41.4768568Z Collecting asciitree
2021-02-03T05:27:41.4769582Z Using cached asciitree-0.3.3-py3-none-any.whl
2021-02-03T05:27:42.4073597Z Installing collected packages: numpy, threadpoolctl, six, scipy, llvmlite, joblib, scikit-learn, pytz, python-dateutil, pillow, numba, kiwisolver, cycler, cached-property, wrapt, urllib3, stdlib-list, pynndescent, patsy, pandas, numexpr, natsort, matplotlib, MarkupSafe, idna, h5py, get-version, future, decorator, chardet, certifi, umap-learn, tqdm, tifffile, texttable, tasklogger, tables, statsmodels, sphinxcontrib-serializinghtml, sphinxcontrib-qthelp, sphinxcontrib-jsmath, sphinxcontrib-htmlhelp, sphinxcontrib-devhelp, sphinxcontrib-applehelp, sortedcontainers, snowballstemmer, sinfo, seaborn, requests, pyyaml, PyWavelets, pymongo, pygsp, Pygments, networkx, legacy-api-wrap, Jinja2, imagesize, imageio, fbpca, docutils, Deprecated, dataclasses, babel, anndata, alabaster, xlrd, typed-ast, torch, toolz, sphinx, scprep, scikit-misc, scikit-image, scanpy, regex, python-igraph, pbr, pathspec, numcodecs, mypy-extensions, intervaltree, hyperopt, graphtools, geosketch, fasteners, dask, cython, click, asciitree, appdirs, annoy, zarr, zappy, sphinx-rtd-theme, sphinx-autodoc-typehints, setuptools-scm, scvi, scrublet, scanpydoc, scanorama, pytoml, pytest-nunit, profimp, magic-impute, louvain, leidenalg, harmonypy, fsspec, black
2021-02-03T05:28:39.7151238Z Running setup.py develop for scanpy
2021-02-03T05:28:43.3469589Z Successfully installed Deprecated-1.2.11 Jinja2-2.11.3 MarkupSafe-1.1.1 PyWavelets-1.1.1 Pygments-2.7.4 alabaster-0.7.12 anndata-0.7.5 annoy-1.17.0 appdirs-1.4.4 asciitree-0.3.3 babel-2.9.0 black-20.8b1 cached-property-1.5.2 certifi-2020.12.5 chardet-4.0.0 click-7.1.2 cycler-0.10.0 cython-0.29.21 dask-2021.1.1 dataclasses-0.8 decorator-4.4.2 docutils-0.16 fasteners-0.16 fbpca-1.0 fsspec-0.8.5 future-0.18.2 geosketch-1.2 get-version-2.1 graphtools-1.5.2 h5py-3.1.0 harmonypy-0.0.5 hyperopt-0.1.2 idna-2.10 imageio-2.9.0 imagesize-1.2.0 intervaltree-2.1.0 joblib-1.0.0 kiwisolver-1.3.1 legacy-api-wrap-1.2 leidenalg-0.8.3 llvmlite-0.35.0 louvain-0.7.0 magic-impute-2.0.4 matplotlib-3.3.4 mypy-extensions-0.4.3 natsort-7.1.1 networkx-2.5 numba-0.52.0 numcodecs-0.7.3 numexpr-2.7.2 numpy-1.19.5 pandas-1.1.5 pathspec-0.8.1 patsy-0.5.1 pbr-5.5.1 pillow-8.1.0 profimp-0.1.0 pygsp-0.5.1 pymongo-3.11.3 pynndescent-0.5.1 pytest-nunit-0.6.0 python-dateutil-2.8.1 python-igraph-0.8.3 pytoml-0.1.21 pytz-2021.1 pyyaml-5.4.1 regex-2020.11.13 requests-2.25.1 scanorama-1.7 scanpy scanpydoc-0.5.5 scikit-image-0.17.2 scikit-learn-0.24.1 scikit-misc-0.1.3 scipy-1.5.4 scprep-1.0.12 scrublet-0.2.3 scvi-0.6.7 seaborn-0.11.1 setuptools-scm-5.0.1 sinfo-0.3.1 six-1.15.0 snowballstemmer-2.1.0 sortedcontainers-2.3.0 sphinx-3.4.3 sphinx-autodoc-typehints-1.11.1 sphinx-rtd-theme-0.5.1 sphinxcontrib-applehelp-1.0.2 sphinxcontrib-devhelp-1.0.2 sphinxcontrib-htmlhelp-1.0.3 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-qthelp-1.0.3 sphinxcontrib-serializinghtml-1.1.4 statsmodels-0.12.2 stdlib-list-0.8.0 tables-3.6.1 tasklogger-1.0.0 texttable-1.6.3 threadpoolctl-2.1.0 tifffile-2020.9.3 toolz-0.11.1 torch-1.7.1 tqdm-4.56.0 typed-ast-1.4.2 umap-learn-0.5.0 urllib3-1.26.3 wrapt-1.12.1 xlrd-2.0.1 zappy-0.2.0 zarr-2.6.1
2021-02-03T05:28:43.7419028Z ##[section]Finishing: Install dependencies
2021-02-03T05:28:43.7497871Z ##[section]Starting: Display installed versions
2021-02-03T05:28:43.7504361Z ==============================================================================
2021-02-03T05:28:43.7504654Z Task : Command line
2021-02-03T05:28:43.7505187Z Description : Run a command line script using Bash on Linux and macOS and cmd.exe on Windows
2021-02-03T05:28:43.7505480Z Version : 2.178.0
2021-02-03T05:28:43.7505689Z Author : Microsoft Corporation
2021-02-03T05:28:43.7506007Z Help : https://docs.microsoft.com/azure/devops/pipelines/tasks/utility/command-line
2021-02-03T05:28:43.7506344Z ==============================================================================
2021-02-03T05:28:43.8913629Z Generating script.
2021-02-03T05:28:43.8927345Z Script contents:
2021-02-03T05:28:43.8927646Z pip list
2021-02-03T05:28:43.8927995Z ========================== Starting Command Output ===========================
2021-02-03T05:28:43.8955372Z [command]/bin/bash --noprofile --norc /home/vsts/work/_temp/37d02096-2787-4ce1-8c3f-15436eeb29bb.sh
2021-02-03T05:28:44.7310080Z Package Version Location
2021-02-03T05:28:44.7312213Z ----------------------------- ------------------------ -------------------
2021-02-03T05:28:44.7314413Z alabaster 0.7.12
2021-02-03T05:28:44.7315052Z anndata 0.7.5
2021-02-03T05:28:44.7315547Z annoy 1.17.0
2021-02-03T05:28:44.7316003Z appdirs 1.4.4
2021-02-03T05:28:44.7316465Z asciitree 0.3.3
2021-02-03T05:28:44.7316707Z attrs 20.3.0
2021-02-03T05:28:44.7317164Z Babel 2.9.0
2021-02-03T05:28:44.7317419Z black 20.8b1
2021-02-03T05:28:44.7318023Z cached-property 1.5.2
2021-02-03T05:28:44.7318307Z certifi 2020.12.5
2021-02-03T05:28:44.7318568Z chardet 4.0.0
2021-02-03T05:28:44.7318838Z click 7.1.2
2021-02-03T05:28:44.7319076Z coverage 5.4
2021-02-03T05:28:44.7319329Z cycler 0.10.0
2021-02-03T05:28:44.7319592Z Cython 0.29.21
2021-02-03T05:28:44.7319854Z dask 2021.1.1
2021-02-03T05:28:44.7320093Z dataclasses 0.8
2021-02-03T05:28:44.7320347Z decorator 4.4.2
2021-02-03T05:28:44.7320603Z Deprecated 1.2.11
2021-02-03T05:28:44.7320841Z docutils 0.16
2021-02-03T05:28:44.7321094Z fasteners 0.16
2021-02-03T05:28:44.7321343Z fbpca 1.0
2021-02-03T05:28:44.7321603Z fsspec 0.8.5
2021-02-03T05:28:44.7321842Z future 0.18.2
2021-02-03T05:28:44.7322096Z geosketch 1.2
2021-02-03T05:28:44.7322493Z get-version 2.1
2021-02-03T05:28:44.7322755Z graphtools 1.5.2
2021-02-03T05:28:44.7322999Z h5py 3.1.0
2021-02-03T05:28:44.7323254Z harmonypy 0.0.5
2021-02-03T05:28:44.7326907Z hyperopt 0.1.2
2021-02-03T05:28:44.7327370Z idna 2.10
2021-02-03T05:28:44.7327727Z imageio 2.9.0
2021-02-03T05:28:44.7329194Z imagesize 1.2.0
2021-02-03T05:28:44.7329878Z importlib-metadata 3.4.0
2021-02-03T05:28:44.7330299Z iniconfig 1.1.1
2021-02-03T05:28:44.7330638Z intervaltree 2.1.0
2021-02-03T05:28:44.7330991Z Jinja2 2.11.3
2021-02-03T05:28:44.7331349Z joblib 1.0.0
2021-02-03T05:28:44.7333337Z kiwisolver 1.3.1
2021-02-03T05:28:44.7333987Z legacy-api-wrap 1.2
2021-02-03T05:28:44.7334402Z leidenalg 0.8.3
2021-02-03T05:28:44.7334783Z llvmlite 0.35.0
2021-02-03T05:28:44.7335157Z louvain 0.7.0
2021-02-03T05:28:44.7336027Z magic-impute 2.0.4
2021-02-03T05:28:44.7336450Z MarkupSafe 1.1.1
2021-02-03T05:28:44.7336812Z matplotlib 3.3.4
2021-02-03T05:28:44.7337341Z mypy-extensions 0.4.3
2021-02-03T05:28:44.7339986Z natsort 7.1.1
2021-02-03T05:28:44.7340405Z networkx 2.5
2021-02-03T05:28:44.7340768Z numba 0.52.0
2021-02-03T05:28:44.7341143Z numcodecs 0.7.3
2021-02-03T05:28:44.7341513Z numexpr 2.7.2
2021-02-03T05:28:44.7342057Z numpy 1.19.5
2021-02-03T05:28:44.7342439Z packaging 20.9
2021-02-03T05:28:44.7342821Z pandas 1.1.5
2021-02-03T05:28:44.7343601Z pathspec 0.8.1
2021-02-03T05:28:44.7344009Z patsy 0.5.1
2021-02-03T05:28:44.7345436Z pbr 5.5.1
2021-02-03T05:28:44.7346047Z Pillow 8.1.0
2021-02-03T05:28:44.7346612Z pip 21.0.1
2021-02-03T05:28:44.7346982Z pluggy 0.13.1
2021-02-03T05:28:44.7348451Z profimp 0.1.0
2021-02-03T05:28:44.7349125Z py 1.10.0
2021-02-03T05:28:44.7349705Z Pygments 2.7.4
2021-02-03T05:28:44.7350173Z PyGSP 0.5.1
2021-02-03T05:28:44.7352016Z pymongo 3.11.3
2021-02-03T05:28:44.7352678Z pynndescent 0.5.1
2021-02-03T05:28:44.7354504Z pyparsing 2.4.7
2021-02-03T05:28:44.7354774Z pytest 6.2.2
2021-02-03T05:28:44.7355407Z pytest-cov 2.11.1
2021-02-03T05:28:44.7355796Z pytest-nunit 0.6.0
2021-02-03T05:28:44.7356163Z python-dateutil 2.8.1
2021-02-03T05:28:44.7356513Z python-igraph 0.8.3
2021-02-03T05:28:44.7356773Z pytoml 0.1.21
2021-02-03T05:28:44.7357038Z pytz 2021.1
2021-02-03T05:28:44.7357295Z PyWavelets 1.1.1
2021-02-03T05:28:44.7357531Z PyYAML 5.4.1
2021-02-03T05:28:44.7357792Z regex 2020.11.13
2021-02-03T05:28:44.7358054Z requests 2.25.1
2021-02-03T05:28:44.7358305Z scanorama 1.7
2021-02-03T05:28:44.7358592Z scanpy 1.7.0rc2.dev21+gde0dd7f7 /home/vsts/work/1/s
2021-02-03T05:28:44.7358897Z scanpydoc 0.5.5
2021-02-03T05:28:44.7359280Z scikit-image 0.17.2
2021-02-03T05:28:44.7359634Z scikit-learn 0.24.1
2021-02-03T05:28:44.7360014Z scikit-misc 0.1.3
2021-02-03T05:28:44.7360272Z scipy 1.5.4
2021-02-03T05:28:44.7361215Z scprep 1.0.12
2021-02-03T05:28:44.7362734Z scrublet 0.2.3
2021-02-03T05:28:44.7362982Z scvi 0.6.7
2021-02-03T05:28:44.7363247Z seaborn 0.11.1
2021-02-03T05:28:44.7363506Z setuptools 40.6.2
2021-02-03T05:28:44.7364139Z setuptools-scm 5.0.1
2021-02-03T05:28:44.7364770Z sinfo 0.3.1
2021-02-03T05:28:44.7365446Z six 1.15.0
2021-02-03T05:28:44.7365922Z snowballstemmer 2.1.0
2021-02-03T05:28:44.7366397Z sortedcontainers 2.3.0
2021-02-03T05:28:44.7366899Z Sphinx 3.4.3
2021-02-03T05:28:44.7367392Z sphinx-autodoc-typehints 1.11.1
2021-02-03T05:28:44.7368098Z sphinx-rtd-theme 0.5.1
2021-02-03T05:28:44.7368880Z sphinxcontrib-applehelp 1.0.2
2021-02-03T05:28:44.7369481Z sphinxcontrib-devhelp 1.0.2
2021-02-03T05:28:44.7370207Z sphinxcontrib-htmlhelp 1.0.3
2021-02-03T05:28:44.7370744Z sphinxcontrib-jsmath 1.0.1
2021-02-03T05:28:44.7371107Z sphinxcontrib-qthelp 1.0.3
2021-02-03T05:28:44.7371471Z sphinxcontrib-serializinghtml 1.1.4
2021-02-03T05:28:44.7371853Z statsmodels 0.12.2
2021-02-03T05:28:44.7372252Z stdlib-list 0.8.0
2021-02-03T05:28:44.7375137Z tables 3.6.1
2021-02-03T05:28:44.7375405Z tasklogger 1.0.0
2021-02-03T05:28:44.7375818Z texttable 1.6.3
2021-02-03T05:28:44.7376091Z threadpoolctl 2.1.0
2021-02-03T05:28:44.7376727Z tifffile 2020.9.3
2021-02-03T05:28:44.7377230Z toml 0.10.2
2021-02-03T05:28:44.7377696Z toolz 0.11.1
2021-02-03T05:28:44.7378528Z torch 1.7.1
2021-02-03T05:28:44.7378877Z tqdm 4.56.0
2021-02-03T05:28:44.7379467Z typed-ast 1.4.2
2021-02-03T05:28:44.7380158Z typing-extensions 3.7.4.3
2021-02-03T05:28:44.7380812Z umap-learn 0.5.0
2021-02-03T05:28:44.7381306Z urllib3 1.26.3
2021-02-03T05:28:44.7381913Z wheel 0.36.2
2021-02-03T05:28:44.7382374Z wrapt 1.12.1
2021-02-03T05:28:44.7382813Z xlrd 2.0.1
2021-02-03T05:28:44.7383407Z zappy 0.2.0
2021-02-03T05:28:44.7383895Z zarr 2.6.1
2021-02-03T05:28:44.7384207Z zipp 3.4.0
2021-02-03T05:28:44.8934688Z ##[section]Finishing: Display installed versions
2021-02-03T05:28:44.8960064Z ##[section]Starting: Black
2021-02-03T05:28:44.8966031Z ==============================================================================
2021-02-03T05:28:44.8966312Z Task : Command line
2021-02-03T05:28:44.8966741Z Description : Run a command line script using Bash on Linux and macOS and cmd.exe on Windows
2021-02-03T05:28:44.8967018Z Version : 2.178.0
2021-02-03T05:28:44.8967212Z Author : Microsoft Corporation
2021-02-03T05:28:44.8967515Z Help : https://docs.microsoft.com/azure/devops/pipelines/tasks/utility/command-line
2021-02-03T05:28:44.8967832Z ==============================================================================
2021-02-03T05:28:45.8887238Z Generating script.
2021-02-03T05:28:45.8888661Z ========================== Starting Command Output ===========================
2021-02-03T05:28:45.8894866Z [command]/bin/bash --noprofile --norc /home/vsts/work/_temp/c8aff304-5511-4618-aace-aac3e8f5fe7a.sh
2021-02-03T05:28:45.8895781Z Requirement already satisfied: black in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (20.8b1)
2021-02-03T05:28:45.8896698Z Requirement already satisfied: click>=7.1.2 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from black) (7.1.2)
2021-02-03T05:28:45.8897647Z Requirement already satisfied: typing-extensions>=3.7.4 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from black) (3.7.4.3)
2021-02-03T05:28:45.8898559Z Requirement already satisfied: mypy-extensions>=0.4.3 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from black) (0.4.3)
2021-02-03T05:28:45.8899463Z Requirement already satisfied: toml>=0.10.1 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from black) (0.10.2)
2021-02-03T05:28:45.8900350Z Requirement already satisfied: appdirs in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from black) (1.4.4)
2021-02-03T05:28:45.8901237Z Requirement already satisfied: pathspec<1,>=0.6 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from black) (0.8.1)
2021-02-03T05:28:45.8902132Z Requirement already satisfied: typed-ast>=1.4.0 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from black) (1.4.2)
2021-02-03T05:28:45.8903043Z Requirement already satisfied: regex>=2020.1.8 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from black) (2020.11.13)
2021-02-03T05:28:45.8903938Z Requirement already satisfied: dataclasses>=0.6 in /opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages (from black) (0.8)
2021-02-03T05:28:48.2369596Z --- scanpy/get/__init__.py 2021-02-03 05:26:24.646971 +0000
2021-02-03T05:28:48.2370851Z +++ scanpy/get/__init__.py 2021-02-03 05:28:48.185790 +0000
2021-02-03T05:28:48.2371576Z @@ -1,4 +1,5 @@
2021-02-03T05:28:48.2372042Z # Public
2021-02-03T05:28:48.2372850Z from .get import rank_genes_groups_df, obs_df, var_df
2021-02-03T05:28:48.2373309Z +
2021-02-03T05:28:48.2373705Z # Private
2021-02-03T05:28:48.2374193Z from .get import _get_obs_rep, _set_obs_rep
2021-02-03T05:28:48.2384353Z would reformat scanpy/get/__init__.py
2021-02-03T05:28:51.7055654Z Oh no! 💥 💔 💥
2021-02-03T05:28:51.7056576Z 1 file would be reformatted, 114 files would be left unchanged.
2021-02-03T05:29:04.8743523Z scanpy/tools/_sim.py: +353 -285
2021-02-03T05:29:04.8744027Z scanpy/tools/_dpt.py: +292 -102
2021-02-03T05:29:04.8744643Z scanpy/neighbors/__init__.py: +216 -100
2021-02-03T05:29:04.8745291Z scanpy/external/exporting.py: +172 -67
2021-02-03T05:29:04.8745957Z scanpy/tests/test_rank_genes_groups.py: +133 -44
2021-02-03T05:29:04.8746673Z scanpy/plotting/palettes.py: +147 -30
2021-02-03T05:29:04.8747135Z scanpy/preprocessing/_simple.py: +102 -44
2021-02-03T05:29:04.8747582Z scanpy/plotting/_tools/paga.py: +106 -34
2021-02-03T05:29:04.8748272Z scanpy/tools/_paga.py: +89 -38
2021-02-03T05:29:04.8748978Z scanpy/tests/test_neighbors.py: +74 -29
2021-02-03T05:29:04.8750344Z scanpy/preprocessing/_deprecated/highly_variable_genes.py: +64 -37
2021-02-03T05:29:04.8751036Z scanpy/tests/notebooks/test_paga_paul15_subsampled.py: +68 -18
2021-02-03T05:29:04.8751718Z scanpy/plotting/_tools/__init__.py: +55 -19
2021-02-03T05:29:04.8752198Z scanpy/tests/test_preprocessing.py: +39 -34
2021-02-03T05:29:04.8753028Z scanpy/tools/_rank_genes_groups.py: +49 -17
2021-02-03T05:29:04.8753466Z scanpy/tools/_top_genes.py: +39 -25
2021-02-03T05:29:04.8753864Z scanpy/_utils.py: +40 -18
2021-02-03T05:29:04.8754310Z scanpy/tests/test_highly_variable_genes.py: +44 -11
2021-02-03T05:29:04.8754786Z scanpy/tests/test_rank_genes_groups_logreg.py: +42 -9
2021-02-03T05:29:04.8755284Z scanpy/preprocessing/_highly_variable_genes.py: +36 -14
2021-02-03T05:29:04.8756581Z scanpy/logging.py: +35 -12
2021-02-03T05:29:04.8757052Z scanpy/preprocessing/_qc.py: +32 -15
2021-02-03T05:29:04.8757501Z scanpy/tools/_score_genes.py: +36 -9
2021-02-03T05:29:04.8757957Z scanpy/tools/_umap.py: +27 -14
2021-02-03T05:29:04.8758441Z scanpy/tests/notebooks/test_pbmc3k.py: +30 -11
2021-02-03T05:29:04.8759171Z scanpy/tests/test_marker_gene_overlap.py: +21 -14
2021-02-03T05:29:04.8759646Z scanpy/tests/test_get.py: +26 -8
2021-02-03T05:29:04.8760090Z scanpy/plotting/__init__.py: +26 -3
2021-02-03T05:29:04.8761664Z scanpy/tools/_louvain.py: +19 -5
2021-02-03T05:29:04.8762948Z scanpy/tools/_utils.py: +15 -9
2021-02-03T05:29:04.8763525Z scanpy/__init__.py: +20 -3
2021-02-03T05:29:04.8764429Z scanpy/tools/_utils_clustering.py: +16 -7
2021-02-03T05:29:04.8765072Z scanpy/tests/test_readwrite.py: +11 -8
2021-02-03T05:29:04.8765592Z scanpy/tests/test_clustering.py: +12 -5
2021-02-03T05:29:04.8766456Z scanpy/preprocessing/_normalization.py: +9 -7
2021-02-03T05:29:04.8766959Z scanpy/external/tl/_palantir.py: +10 -6
2021-02-03T05:29:04.8767741Z scanpy/tools/_tsne_fix.py: +10 -5
2021-02-03T05:29:05.1192027Z ##[section]Finishing: Black
2021-02-03T05:29:05.1215723Z ##[section]Starting: PyTest
2021-02-03T05:29:05.1222244Z ==============================================================================
2021-02-03T05:29:05.1222534Z Task : Command line
2021-02-03T05:29:05.1222814Z Description : Run a command line script using Bash on Linux and macOS and cmd.exe on Windows
2021-02-03T05:29:05.1223108Z Version : 2.178.0
2021-02-03T05:29:05.1223308Z Author : Microsoft Corporation
2021-02-03T05:29:05.1223629Z Help : https://docs.microsoft.com/azure/devops/pipelines/tasks/utility/command-line
2021-02-03T05:29:05.1223955Z ==============================================================================
2021-02-03T05:29:05.2570878Z Generating script.
2021-02-03T05:29:05.2581279Z Script contents:
2021-02-03T05:29:05.2581917Z pytest --color=yes --ignore=scanpy/tests/_images --nunit-xml="nunit/test-results.xml"
2021-02-03T05:29:05.2582300Z ========================== Starting Command Output ===========================
2021-02-03T05:29:05.2602572Z [command]/bin/bash --noprofile --norc /home/vsts/work/_temp/c1e24372-4126-4b27-b7c8-991137375783.sh
2021-02-03T05:29:24.0713879Z ============================= test session starts ==============================
2021-02-03T05:29:24.0715259Z platform linux -- Python 3.6.12, pytest-6.2.2, py-1.10.0, pluggy-0.13.1
2021-02-03T05:29:24.0715935Z rootdir: /home/vsts/work/1/s, configfile: pyproject.toml, testpaths: scanpy/tests/
2021-02-03T05:29:24.0716764Z plugins: cov-2.11.1, nunit-0.6.0
2021-02-03T05:29:24.0717466Z collected 658 items / 5 skipped / 653 selected
2021-02-03T05:29:24.0717642Z
2021-02-03T05:29:24.1412364Z scanpy/tests/test_binary.py ...... [ 0%]
2021-02-03T05:29:25.1104436Z scanpy/tests/test_clustering.py ..... [ 1%]
2021-02-03T05:29:25.4692373Z scanpy/tests/test_combat.py .... [ 2%]
2021-02-03T05:29:25.7354233Z scanpy/tests/test_datasets.py ssssss....s. [ 4%]
2021-02-03T05:29:25.9838470Z scanpy/tests/test_dendrogram_key_added.py .... [ 4%]
2021-02-03T05:29:26.0533437Z scanpy/tests/test_docs.py .............................................. [ 11%]
2021-02-03T05:29:26.1626341Z ........................................................................ [ 22%]
2021-02-03T05:29:26.2689593Z ........................................................................ [ 33%]
2021-02-03T05:29:26.2700923Z . [ 33%]
2021-02-03T05:29:30.1253144Z scanpy/tests/test_embedding.py .s. [ 34%]
2021-02-03T05:29:30.2571435Z scanpy/tests/test_embedding_density.py .. [ 34%]
2021-02-03T05:29:55.1361959Z scanpy/tests/test_embedding_plots.py ................................... [ 39%]
2021-02-03T05:31:16.7436689Z ....................................................................s... [ 50%]
2021-02-03T05:31:24.2421336Z ....ssss. [ 52%]
2021-02-03T05:31:25.4801859Z scanpy/tests/test_filter_rank_genes_groups.py . [ 52%]
2021-02-03T05:31:26.3869292Z scanpy/tests/test_get.py .................. [ 55%]
2021-02-03T05:31:32.2627746Z scanpy/tests/test_highly_variable_genes.py ..... [ 55%]
2021-02-03T05:32:47.9948800Z scanpy/tests/test_ingest.py ...... [ 56%]
2021-02-03T05:32:48.0076035Z scanpy/tests/test_logging.py ..... [ 57%]
2021-02-03T05:32:48.0233094Z scanpy/tests/test_marker_gene_overlap.py .... [ 58%]
2021-02-03T05:32:48.1352950Z scanpy/tests/test_neighbors.py ....... [ 59%]
2021-02-03T05:33:00.2939342Z scanpy/tests/test_neighbors_key_added.py ... [ 59%]
2021-02-03T05:33:00.4067003Z scanpy/tests/test_normalization.py ............ [ 61%]
2021-02-03T05:33:38.6701122Z scanpy/tests/test_pca.py ............ [ 63%]
2021-02-03T05:33:38.6720756Z scanpy/tests/test_performance.py . [ 63%]
2021-02-03T05:34:21.0102244Z scanpy/tests/test_plotting.py .......................................... [ 69%]
2021-02-03T05:34:38.0626915Z ....x............... [ 72%]
2021-02-03T05:34:40.2692471Z scanpy/tests/test_preprocessing.py ..................................... [ 78%]
2021-02-03T05:34:54.2434028Z ............................................................ [ 87%]
2021-02-03T05:34:59.5167370Z scanpy/tests/test_preprocessing_distributed.py ............ [ 89%]
2021-02-03T05:35:28.1902573Z scanpy/tests/test_qc_metrics.py ............... [ 91%]
2021-02-03T05:35:28.1927523Z scanpy/tests/test_queries.py ss [ 91%]
2021-02-03T05:35:29.6438133Z scanpy/tests/test_rank_genes_groups.py ........ [ 93%]
2021-02-03T05:35:29.9176430Z scanpy/tests/test_rank_genes_groups_logreg.py .. [ 93%]
2021-02-03T05:35:30.7877054Z scanpy/tests/test_read_10x.py .......... [ 94%]
2021-02-03T05:35:30.7964117Z scanpy/tests/test_readwrite.py ...... [ 95%]
2021-02-03T05:35:30.8641243Z scanpy/tests/test_scaling.py .... [ 96%]
2021-02-03T05:35:31.1386742Z scanpy/tests/test_score_genes.py ........ [ 97%]
2021-02-03T05:35:31.1720785Z scanpy/tests/test_sim.py . [ 97%]
2021-02-03T05:35:31.1780661Z scanpy/tests/test_utils.py .. [ 98%]
2021-02-03T05:35:37.9965891Z scanpy/tests/external/test_harmony_integrate.py . [ 98%]
2021-02-03T05:35:38.3780760Z scanpy/tests/external/test_hashsolo.py . [ 98%]
2021-02-03T05:35:38.4156607Z scanpy/tests/external/test_magic.py ... [ 98%]
2021-02-03T05:35:38.5458443Z scanpy/tests/external/test_scanorama_integrate.py Fatal Python error: Illegal instruction
2021-02-03T05:35:38.5459137Z
2021-02-03T05:35:38.5462603Z Thread 0x00007ff3519d9700 (most recent call first):
2021-02-03T05:35:38.5511872Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 295 in wait
2021-02-03T05:35:38.5519486Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/queue.py", line 164 in get
2021-02-03T05:35:38.5520252Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/multiprocessing/pool.py", line 463 in _handle_results
2021-02-03T05:35:38.5520972Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 864 in run
2021-02-03T05:35:38.5531673Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 916 in _bootstrap_inner
2021-02-03T05:35:38.5532583Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 884 in _bootstrap
2021-02-03T05:35:38.5533078Z
2021-02-03T05:35:38.5533640Z Thread 0x00007ff360df2700 (most recent call first):
2021-02-03T05:35:38.5534355Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 295 in wait
2021-02-03T05:35:38.5544733Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/queue.py", line 164 in get
2021-02-03T05:35:38.5545722Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/multiprocessing/pool.py", line 415 in _handle_tasks
2021-02-03T05:35:38.5546886Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 864 in run
2021-02-03T05:35:38.5547657Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 916 in _bootstrap_inner
2021-02-03T05:35:38.5558903Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 884 in _bootstrap
2021-02-03T05:35:38.5559468Z
2021-02-03T05:35:38.5560055Z Thread 0x00007ff3615f3700 (most recent call first):
2021-02-03T05:35:38.5561080Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/multiprocessing/pool.py", line 406 in _handle_workers
2021-02-03T05:35:38.5561796Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 864 in run
2021-02-03T05:35:38.5573330Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 916 in _bootstrap_inner
2021-02-03T05:35:38.5574147Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 884 in _bootstrap
2021-02-03T05:35:38.5574799Z
2021-02-03T05:35:38.5575329Z Thread 0x00007ff36927a700 (most recent call first):
2021-02-03T05:35:38.5576018Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 295 in wait
2021-02-03T05:35:38.5576752Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/queue.py", line 164 in get
2021-02-03T05:35:38.5587968Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/multiprocessing/pool.py", line 108 in worker
2021-02-03T05:35:38.5589302Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 864 in run
2021-02-03T05:35:38.5589849Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 916 in _bootstrap_inner
2021-02-03T05:35:38.5600997Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 884 in _bootstrap
2021-02-03T05:35:38.5601536Z
2021-02-03T05:35:38.5602063Z Thread 0x00007ff369a7b700 (most recent call first):
2021-02-03T05:35:38.5602724Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 295 in wait
2021-02-03T05:35:38.5603405Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/queue.py", line 164 in get
2021-02-03T05:35:38.5613832Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/multiprocessing/pool.py", line 108 in worker
2021-02-03T05:35:38.5614756Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 864 in run
2021-02-03T05:35:38.5615575Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 916 in _bootstrap_inner
2021-02-03T05:35:38.5616355Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 884 in _bootstrap
2021-02-03T05:35:38.5616857Z
2021-02-03T05:35:38.5617394Z Thread 0x00007ff38753f700 (most recent call first):
2021-02-03T05:35:38.5628252Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 299 in wait
2021-02-03T05:35:38.5629148Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 551 in wait
2021-02-03T05:35:38.5630714Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/tqdm/_monitor.py", line 60 in run
2021-02-03T05:35:38.5641185Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 916 in _bootstrap_inner
2021-02-03T05:35:38.5642105Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/threading.py", line 884 in _bootstrap
2021-02-03T05:35:38.5642582Z
2021-02-03T05:35:38.5643170Z Current thread 0x00007ff430183680 (most recent call first):
2021-02-03T05:35:38.5644370Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/scanorama/scanorama.py", line 522 in nn_approx
2021-02-03T05:35:38.5654859Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/scanorama/scanorama.py", line 590 in fill_table
2021-02-03T05:35:38.5656247Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/scanorama/scanorama.py", line 632 in find_alignments_table
2021-02-03T05:35:38.5657508Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/scanorama/scanorama.py", line 668 in find_alignments
2021-02-03T05:35:38.5669892Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/scanorama/scanorama.py", line 794 in assemble
2021-02-03T05:35:38.5671247Z File "/home/vsts/work/1/s/scanpy/external/pp/_scanorama_integrate.py", line 128 in scanorama_integrate
2021-02-03T05:35:38.5672093Z File "/home/vsts/work/1/s/scanpy/tests/external/test_scanorama_integrate.py", line 16 in test_scanorama_integrate
2021-02-03T05:35:38.5684369Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/python.py", line 183 in pytest_pyfunc_call
2021-02-03T05:35:38.5686042Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/callers.py", line 187 in _multicall
2021-02-03T05:35:38.5698122Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/manager.py", line 87 in <lambda>
2021-02-03T05:35:38.5699455Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/manager.py", line 93 in _hookexec
2021-02-03T05:35:38.5700791Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/hooks.py", line 286 in __call__
2021-02-03T05:35:38.5713015Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/python.py", line 1641 in runtest
2021-02-03T05:35:38.5714304Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/runner.py", line 162 in pytest_runtest_call
2021-02-03T05:35:38.5715525Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/callers.py", line 187 in _multicall
2021-02-03T05:35:38.5725065Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/manager.py", line 87 in <lambda>
2021-02-03T05:35:38.5726329Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/manager.py", line 93 in _hookexec
2021-02-03T05:35:38.5727516Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/hooks.py", line 286 in __call__
2021-02-03T05:35:38.5776900Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/runner.py", line 255 in <lambda>
2021-02-03T05:35:38.5785175Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/runner.py", line 311 in from_call
2021-02-03T05:35:38.5786948Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/runner.py", line 255 in call_runtest_hook
2021-02-03T05:35:38.5795408Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/runner.py", line 215 in call_and_report
2021-02-03T05:35:38.5796850Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/runner.py", line 126 in runtestprotocol
2021-02-03T05:35:38.5797986Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/runner.py", line 109 in pytest_runtest_protocol
2021-02-03T05:35:38.5805880Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/callers.py", line 187 in _multicall
2021-02-03T05:35:38.5807591Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/manager.py", line 87 in <lambda>
2021-02-03T05:35:38.5808982Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/manager.py", line 93 in _hookexec
2021-02-03T05:35:38.5816508Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/hooks.py", line 286 in __call__
2021-02-03T05:35:38.5818255Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/main.py", line 348 in pytest_runtestloop
2021-02-03T05:35:38.5825786Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/callers.py", line 187 in _multicall
2021-02-03T05:35:38.5827042Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/manager.py", line 87 in <lambda>
2021-02-03T05:35:38.5828277Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/manager.py", line 93 in _hookexec
2021-02-03T05:35:38.5836772Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/hooks.py", line 286 in __call__
2021-02-03T05:35:38.5838027Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/main.py", line 323 in _main
2021-02-03T05:35:38.5839355Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/main.py", line 269 in wrap_session
2021-02-03T05:35:38.5849805Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/main.py", line 316 in pytest_cmdline_main
2021-02-03T05:35:38.5851425Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/callers.py", line 187 in _multicall
2021-02-03T05:35:38.5852908Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/manager.py", line 87 in <lambda>
2021-02-03T05:35:38.5864174Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/manager.py", line 93 in _hookexec
2021-02-03T05:35:38.5865645Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/pluggy/hooks.py", line 286 in __call__
2021-02-03T05:35:38.5866863Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/config/__init__.py", line 163 in main
2021-02-03T05:35:38.5878234Z File "/opt/hostedtoolcache/Python/3.6.12/x64/lib/python3.6/site-packages/_pytest/config/__init__.py", line 185 in console_main
2021-02-03T05:35:38.5879140Z File "/opt/hostedtoolcache/Python/3.6.12/x64/bin/pytest", line 8 in <module>
2021-02-03T05:38:07.8309101Z /home/vsts/work/_temp/c1e24372-4126-4b27-b7c8-991137375783.sh: line 1: 2971 Illegal instruction (core dumped) pytest --color=yes --ignore=scanpy/tests/_images --nunit-xml="nunit/test-results.xml"
2021-02-03T05:38:07.8400911Z ##[error]Bash exited with code '132'.
2021-02-03T05:38:07.8672100Z ##[section]Finishing: PyTest
2021-02-03T05:38:07.8738211Z ##[section]Starting: PublishTestResults
2021-02-03T05:38:07.8753265Z ==============================================================================
2021-02-03T05:38:07.8754106Z Task : Publish Test Results
2021-02-03T05:38:07.8754674Z Description : Publish test results to Azure Pipelines
2021-02-03T05:38:07.8754887Z Version : 2.171.0
2021-02-03T05:38:07.8755072Z Author : Microsoft Corporation
2021-02-03T05:38:07.8755553Z Help : https://docs.microsoft.com/azure/devops/pipelines/tasks/test/publish-test-results
2021-02-03T05:38:07.8755897Z ==============================================================================
2021-02-03T05:38:08.2563838Z [command]/usr/bin/dotnet --version
2021-02-03T05:38:08.5891496Z 5.0.102
2021-02-03T05:38:08.5895144Z ##[warning]No test result files matching nunit/test-results.xml were found.
2021-02-03T05:38:08.6318088Z ##[section]Finishing: PublishTestResults
2021-02-03T05:38:08.6345621Z ##[section]Starting: Cache pip packages
2021-02-03T05:38:08.6352771Z ==============================================================================
2021-02-03T05:38:08.6353122Z Task : Cache
2021-02-03T05:38:08.6353396Z Description : Cache files between runs
2021-02-03T05:38:08.6353639Z Version : 2.0.1
2021-02-03T05:38:08.6354208Z Author : Microsoft Corporation
2021-02-03T05:38:08.6354449Z Help : https://aka.ms/pipeline-caching-docs
2021-02-03T05:38:08.6354739Z ==============================================================================
2021-02-03T05:38:08.9704186Z ##[section]Finishing: Cache pip packages
2021-02-03T05:38:08.9727786Z ##[section]Starting: Checkout theislab/scanpy@master to s
2021-02-03T05:38:08.9732956Z ==============================================================================
2021-02-03T05:38:08.9733261Z Task : Get sources
2021-02-03T05:38:08.9733553Z Description : Get sources from a repository. Supports Git, TfsVC, and SVN repositories.
2021-02-03T05:38:08.9733862Z Version : 1.0.0
2021-02-03T05:38:08.9734055Z Author : Microsoft
2021-02-03T05:38:08.9734367Z Help : [More Information](https://go.microsoft.com/fwlink/?LinkId=798199)
2021-02-03T05:38:08.9734711Z ==============================================================================
2021-02-03T05:38:09.2953226Z Cleaning any cached credential from repository: theislab/scanpy (GitHub)
2021-02-03T05:38:09.3003130Z ##[section]Finishing: Checkout theislab/scanpy@master to s
2021-02-03T05:38:09.3069429Z ##[section]Starting: Finalize Job
2021-02-03T05:38:09.3101070Z Cleaning up task key
2021-02-03T05:38:09.3102763Z Start cleaning up orphan processes.
2021-02-03T05:38:09.3387451Z ##[section]Finishing: Finalize Job
2021-02-03T05:38:09.3437650Z ##[section]Finishing: PyTest Python36
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment