{"action":"closed","issue":{"url":"https://api.github.com/repos/PacificBiosciences/FALCON-integrate/issues/159","repository_url":"https://api.github.com/repos/PacificBiosciences/FALCON-integrate","labels_url":"https://api.github.com/repos/PacificBiosciences/FALCON-integrate/issues/159/labels{/name}","comments_url":"https://api.github.com/repos/PacificBiosciences/FALCON-integrate/issues/159/comments","events_url":"https://api.github.com/repos/PacificBiosciences/FALCON-integrate/issues/159/events","html_url":"https://github.com/PacificBiosciences/FALCON-integrate/issues/159","id":276824390,"number":159,"title":"error in nim installation","user":{"login":"Fyphia","id":12403817,"avatar_url":"https://avatars1.githubusercontent.com/u/12403817?v=4","gravatar_id":"","url":"https://api.github.com/users/Fyphia","html_url":"https://github.com/Fyphia","followers_url":"https://api.github.com/users/Fyphia/followers","following_url":"https://api.github.com/users/Fyphia/following{/other_user}","gists_url":"https://api.github.com/users/Fyphia/gists{/gist_id}","starred_url":"https://api.github.com/users/Fyphia/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Fyphia/subscriptions","organizations_url":"https://api.github.com/users/Fyphia/orgs","repos_url":"https://api.github.com/users/Fyphia/repos","events_url":"https://api.github.com/users/Fyphia/events{/privacy}","received_events_url":"https://api.github.com/users/Fyphia/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":1,"created_at":"2017-11-26T13:21:22Z","updated_at":"2018-02-20T19:19:25Z","closed_at":"2018-02-20T19:19:25Z","author_association":"NONE","body":"Hi, I'm trying to install the latest Falcon according to\r\nhttps://github.com/PacificBiosciences/FALCON-integrate/wiki/Installation\r\nas follow:\r\n```\r\nexport GIT_SYM_CACHE_DIR=~/.git-sym-cache # to speed things up\r\ngit clone git://github.com/PacificBiosciences/FALCON-integrate.git\r\ncd FALCON-integrate\r\ngit checkout develop  # or whatever version you want\r\ngit submodule update --init --recursive # Note: You must do this yourself! No longer via `make init`.\r\nmake init\r\nsource env.sh\r\nmake config-edit-user\r\nmake -j all\r\nmake test  # to run a simple one\r\n```\r\nMy python version is 2.7.12.\r\n\r\nWhen I run \"**make -j all**\" , I get an error :\r\n```\r\nmake[3]: Entering directory `/bigdata/baolab/fxie/new2/FALCON-integrate/nim-falcon/src'\r\nnim --threads:on --threadAnalysis:off --verbosity:2 -d:release  --tlsemulation:on --out:fc_rr_hctg_track2.exe c fc_rr_hctg_track2.nim\r\nmake[3]: nim: Command not found\r\nmake[3]: *** [fc_rr_hctg_track2.exe] Error 127\r\nmake[3]: Leaving directory `/bigdata/baolab/fxie/new2/FALCON-integrate/nim-falcon/src'\r\nmake[2]: *** [install-nim-falcon] Error 2\r\n```\r\nI tried to install \"**nim**\" by myself as I suggested in issue #157. After I installed nim and add it into path, I still got this issue .\r\nI tried to run the command :\r\n```\r\nnim --threads:on --threadAnalysis:off --verbosity:2 -d:release  --tlsemulation:on --out:fc_rr_hctg_track2.exe c fc_rr_hctg_track2.nim\r\n```\r\nBut I got this error:\r\n```\r\nfxie@pigeon:~/bigdata/new2/FALCON/FALCON-integrate$ nim --threads:on --threadAnalysis:off --verbosity:2 -d:release  --tlsemulation:on --out:fc_rr_hctg_track2.exe c fc_rr_hctg_track2.nim\r\nconfig/nim.cfg(42, 3) Hint: added path: '/rhome/fxie/.nimble/pkgs/' [Path]\r\nconfig/nim.cfg(44, 5) Hint: added path: '/opt/nimble/pkgs/' [Path]\r\nHint: used config file '/bigdata/baolab/fxie/new2/nim/Nim/config/nim.cfg' [Conf]\r\nHint: system [Processing]\r\nHint: fc_rr_hctg_track2 [Processing]\r\nError: cannot open 'fc_rr_hctg_track2.nim'\r\n\r\n```\r\n\r\nIt seems like I fail in the installation of \"nim\" in this folder : FALCON-integrate/nim-falcon/src.\r\nWhen I come to the folder **FALCON-integrate/nim-falcon/src** and run command \"**make**\", I get this output:\r\n```\r\nnim --threads:on --threadAnalysis:off --verbosity:2 -d:release  --tlsemulation:on --out:fc_rr_hctg_track2.exe c fc_rr_hctg_track2.nim\r\nconfig/nim.cfg(42, 3) Hint: added path: '/rhome/fxie/.nimble/pkgs/' [Path]\r\nconfig/nim.cfg(44, 5) Hint: added path: '/opt/nimble/pkgs/' [Path]\r\nHint: used config file '/bigdata/baolab/fxie/new2/nim/Nim/config/nim.cfg' [Conf]\r\nHint: system [Processing]\r\nHint: fc_rr_hctg_track2 [Processing]\r\nHint: rr_hctg_track [Processing]\r\nHint: msgpack4nim [Processing]\r\nHint: streams [Processing]\r\nHint: endians [Processing]\r\nHint: strutils [Processing]\r\nHint: parseutils [Processing]\r\nHint: math [Processing]\r\nHint: algorithm [Processing]\r\nHint: sequtils [Processing]\r\nHint: hashes [Processing]\r\nHint: tables [Processing]\r\nHint: intsets [Processing]\r\nHint: lists [Processing]\r\nHint: queues [Processing]\r\nHint: sets [Processing]\r\nHint: strtabs [Processing]\r\nHint: os [Processing]\r\nHint: times [Processing]\r\nHint: posix [Processing]\r\nHint: ospaths [Processing]\r\nHint: critbits [Processing]\r\nHint: macros [Processing]\r\n/bigdata/baolab/fxie/new2/FALCON/FALCON-integrate/nim-falcon/repos/msgpack4nim/msgpack4nim.nim(49, 50) Error: type mismatch: got (uint16) but expected 'uint8'\r\nmake: *** [fc_rr_hctg_track2.exe] Error 1\r\n```\r\n\r\nWhat should I do to solve this issue ? Thanks a lot!"}}
{"actor":{"display_login":"pb-cdunn"}}