Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught error.
Hey, We are trying to resolve the issue so that others do not have to change the Apache settings. Is it possible to test this potential fix here: https://github.com/galaxyproject/galaxy/pull/4225 and comment on the issue? Thanks in advance, Sam On Thu, Jun 15, 2017 at 5:13 PM, Nicola Soranzo <nsora...@tiscali.it> wrote: > According to the same documentation, you need it only if using the > mod_proxy Apache module with HTTP transport, but I'm using nginx, not > Apache, so I'm not the best person to ask. > > Cheers, > Nicola > > > On 15/06/17 15:55, Fernandez Edgar wrote: > > Thanks Nicola for the comfirmation. > > > > Would you mind explaining a little more: > > > > ProxyPass / http://127.0.0.1:8080/ > > Should I add this too? > > > > *Edgar Fernandez* > > System Administrator (Linux) > > Technologies de l'Information > > *Université de Montréal* > > > > PAVILLON ROGER-GAUDRY, bureau X-210 > > ( Bur. : *1-514-343-6111 <(514)%20343-6111> poste 16568* > > > > *From:* Nicola Soranzo [mailto:nicola.sora...@gmail.com > <nicola.sora...@gmail.com>] *On Behalf Of *Nicola Soranzo > *Sent:* June 15, 2017 10:44 AM > *To:* SAPET, Frederic <frederic.sa...@biogemma.com> > <frederic.sa...@biogemma.com>; Fernandez Edgar > <edgar.fernan...@umontreal.ca> <edgar.fernan...@umontreal.ca>; > galaxy-...@bx.psu.edu > *Subject:* Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught > error. > > > > Hi Edgar, Frederic, > if you are using Apache as proxy for your Galaxy server, then you should > probably add > > AllowEncodedSlashes NoDecode > > > to your Apache config, see https://galaxyproject.org/ > admin/config/apache-proxy/#allow-encoded-slashes-in-urls > > Cheers, > Nicola > > On 15/06/17 15:35, SAPET, Frederic wrote: > > Hi > > > > Same for me. > > But It looks like to be related with tools installed via the toolshed (Ie > : bedtools, emboss, blast+ suite…). > > My own tools seem to be ok. > > > > Just like you Edgar, nothing in the log… > > > > Fred > > > > *De :* galaxy-dev [mailto:galaxy-dev-boun...@lists.galaxyproject.org > <galaxy-dev-boun...@lists.galaxyproject.org>] *De la part de* Fernandez > Edgar > *Envoyé :* mercredi 14 juin 2017 17:11 > *À :* galaxy-...@bx.psu.edu > *Objet :* [galaxy-dev] new installation galaxy-17.05 - Uncaught error. > > > > Hey Guys, > > > > Hope everyone is doing ok. > > > > I have a small issue with a brand new installation of galaxy-1705. > > It starts properly and I installed some tools. > > But when I try to test any tools I get and “Uncaught error” (see picture). > > > > I can’t find anywhere in the logs what is happening. > > > > Any ideas? > > > > Regards, > > > > *Edgar Fernandez* > > System Administrator (Linux) > > Technologies de l'Information > > *Université de Montréal* > > > > PAVILLON ROGER-GAUDRY, bureau X-210 > > ( Bur. : *1-514-343-6111 <(514)%20343-6111> poste 16568* > > > > > > > ___ > > Please keep all replies on the list by using "reply all" > > in your mail client. To manage your subscriptions to this > > and other Galaxy lists, please use the interface at: > > https://lists.galaxyproject.org/ > > > > To search Galaxy mailing lists use the unified search at: > > http://galaxyproject.org/search/ > > > > > > ___ > Please keep all replies on the list by using "reply all" > in your mail client. To manage your subscriptions to this > and other Galaxy lists, please use the interface at: > https://lists.galaxyproject.org/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/ > ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught error.
According to the same documentation, you need it only if using the |mod_proxy| Apache module with HTTP transport, but I'm using nginx, not Apache, so I'm not the best person to ask. Cheers, Nicola On 15/06/17 15:55, Fernandez Edgar wrote: Thanks Nicola for the comfirmation. Would you mind explaining a little more: ProxyPass / http://127.0.0.1:8080/ Should I add this too? *Edgar Fernandez* System Administrator (Linux) Technologies de l'Information*//* */Université de Montréal/* *//* PAVILLON ROGER-GAUDRY, bureau X-210 ( Bur. : *1-514-343-6111 poste 16568//* *From:*Nicola Soranzo [mailto:nicola.sora...@gmail.com] *On Behalf Of *Nicola Soranzo *Sent:* June 15, 2017 10:44 AM *To:* SAPET, Frederic <frederic.sa...@biogemma.com>; Fernandez Edgar <edgar.fernan...@umontreal.ca>; galaxy-...@bx.psu.edu *Subject:* Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hi Edgar, Frederic, if you are using Apache as proxy for your Galaxy server, then you should probably add |AllowEncodedSlashes NoDecode| to your Apache config, see https://galaxyproject.org/admin/config/apache-proxy/#allow-encoded-slashes-in-urls Cheers, Nicola On 15/06/17 15:35, SAPET, Frederic wrote: Hi Same for me. But It looks like to be related with tools installed via the toolshed (Ie : bedtools, emboss, blast+ suite…). My own tools seem to be ok. Just like you Edgar, nothing in the log… Fred *De :*galaxy-dev [mailto:galaxy-dev-boun...@lists.galaxyproject.org] *De la part de* Fernandez Edgar *Envoyé :* mercredi 14 juin 2017 17:11 *À :* galaxy-...@bx.psu.edu <mailto:galaxy-...@bx.psu.edu> *Objet :* [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hey Guys, Hope everyone is doing ok. I have a small issue with a brand new installation of galaxy-1705. It starts properly and I installed some tools. But when I try to test any tools I get and “Uncaught error” (see picture). I can’t find anywhere in the logs what is happening. Any ideas? Regards, *Edgar Fernandez* System Administrator (Linux) Technologies de l'Information */Université de Montréal/* *//* PAVILLON ROGER-GAUDRY, bureau X-210 ( Bur. : *1-514-343-6111 poste 16568* ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/ ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught error.
Hi Fred, It was already needed for data manager tools in 17.01, it seems it's needed for all tools installed from the ToolShed since 17.05, but I use nginx, not Apache. Cheers, Nicola On 15/06/17 15:57, SAPET, Frederic wrote: Hello, Thank you as well, Is that a new behavior with 17.05 ? I use the Apache proxy since a while without any problem, with previous versions of Galaxy. Regards, Fred *De :*Nicola Soranzo [mailto:nicola.sora...@gmail.com] *De la part de* Nicola Soranzo *Envoyé :* jeudi 15 juin 2017 16:44 *À :* SAPET, Frederic <frederic.sa...@biogemma.com>; Fernandez Edgar <edgar.fernan...@umontreal.ca>; galaxy-...@bx.psu.edu *Objet :* Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hi Edgar, Frederic, if you are using Apache as proxy for your Galaxy server, then you should probably add |AllowEncodedSlashes NoDecode| to your Apache config, see https://galaxyproject.org/admin/config/apache-proxy/#allow-encoded-slashes-in-urls Cheers, Nicola On 15/06/17 15:35, SAPET, Frederic wrote: Hi Same for me. But It looks like to be related with tools installed via the toolshed (Ie : bedtools, emboss, blast+ suite…). My own tools seem to be ok. Just like you Edgar, nothing in the log… Fred *De :*galaxy-dev [mailto:galaxy-dev-boun...@lists.galaxyproject.org] *De la part de* Fernandez Edgar *Envoyé :* mercredi 14 juin 2017 17:11 *À :* galaxy-...@bx.psu.edu <mailto:galaxy-...@bx.psu.edu> *Objet :* [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hey Guys, Hope everyone is doing ok. I have a small issue with a brand new installation of galaxy-1705. It starts properly and I installed some tools. But when I try to test any tools I get and “Uncaught error” (see picture). I can’t find anywhere in the logs what is happening. Any ideas? Regards, *Edgar Fernandez* System Administrator (Linux) Technologies de l'Information */Université de Montréal/* *//* PAVILLON ROGER-GAUDRY, bureau X-210 ( Bur. : *1-514-343-6111 poste 16568* ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/ ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught error.
Hello, Thank you as well, Is that a new behavior with 17.05 ? I use the Apache proxy since a while without any problem, with previous versions of Galaxy. Regards, Fred De : Nicola Soranzo [mailto:nicola.sora...@gmail.com] De la part de Nicola Soranzo Envoyé : jeudi 15 juin 2017 16:44 À : SAPET, Frederic <frederic.sa...@biogemma.com>; Fernandez Edgar <edgar.fernan...@umontreal.ca>; galaxy-...@bx.psu.edu Objet : Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hi Edgar, Frederic, if you are using Apache as proxy for your Galaxy server, then you should probably add AllowEncodedSlashes NoDecode to your Apache config, see https://galaxyproject.org/admin/config/apache-proxy/#allow-encoded-slashes-in-urls Cheers, Nicola On 15/06/17 15:35, SAPET, Frederic wrote: Hi Same for me. But It looks like to be related with tools installed via the toolshed (Ie : bedtools, emboss, blast+ suite...). My own tools seem to be ok. Just like you Edgar, nothing in the log... Fred De : galaxy-dev [mailto:galaxy-dev-boun...@lists.galaxyproject.org] De la part de Fernandez Edgar Envoyé : mercredi 14 juin 2017 17:11 À : galaxy-...@bx.psu.edu<mailto:galaxy-...@bx.psu.edu> Objet : [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hey Guys, Hope everyone is doing ok. I have a small issue with a brand new installation of galaxy-1705. It starts properly and I installed some tools. But when I try to test any tools I get and "Uncaught error" (see picture). I can't find anywhere in the logs what is happening. Any ideas? Regards, Edgar Fernandez System Administrator (Linux) Technologies de l'Information Université de Montréal PAVILLON ROGER-GAUDRY, bureau X-210 * Bur. : 1-514-343-6111 poste 16568 ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/ ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught error.
Hello, Nice ! Thank you for the help. Regards, Fred De : Fernandez Edgar [mailto:edgar.fernan...@umontreal.ca] Envoyé : jeudi 15 juin 2017 16:41 À : SAPET, Frederic <frederic.sa...@biogemma.com>; galaxy-...@bx.psu.edu Objet : RE: [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hello Frederic, I actually just fixed the problem not 5 minutes ago... In your file: /etc/httpd/vhosts.d/galaxy_prod.conf Add the following line: AllowEncodedSlashes NoDecode Please let me know what you think... Regards, Edgar Fernandez System Administrator (Linux) Technologies de l'Information Université de Montréal PAVILLON ROGER-GAUDRY, bureau X-210 * Bur. : 1-514-343-6111 poste 16568 From: SAPET, Frederic [mailto:frederic.sa...@biogemma.com] Sent: June 15, 2017 10:36 AM To: Fernandez Edgar <edgar.fernan...@umontreal.ca<mailto:edgar.fernan...@umontreal.ca>>; galaxy-...@bx.psu.edu<mailto:galaxy-...@bx.psu.edu> Subject: RE: [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hi Same for me. But It looks like to be related with tools installed via the toolshed (Ie : bedtools, emboss, blast+ suite...). My own tools seem to be ok. Just like you Edgar, nothing in the log... Fred De : galaxy-dev [mailto:galaxy-dev-boun...@lists.galaxyproject.org] De la part de Fernandez Edgar Envoyé : mercredi 14 juin 2017 17:11 À : galaxy-...@bx.psu.edu<mailto:galaxy-...@bx.psu.edu> Objet : [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hey Guys, Hope everyone is doing ok. I have a small issue with a brand new installation of galaxy-1705. It starts properly and I installed some tools. But when I try to test any tools I get and "Uncaught error" (see picture). I can't find anywhere in the logs what is happening. Any ideas? Regards, Edgar Fernandez System Administrator (Linux) Technologies de l'Information Université de Montréal PAVILLON ROGER-GAUDRY, bureau X-210 * Bur. : 1-514-343-6111 poste 16568 ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught error.
Hi Edgar, Frederic, if you are using Apache as proxy for your Galaxy server, then you should probably add |AllowEncodedSlashes NoDecode| to your Apache config, see https://galaxyproject.org/admin/config/apache-proxy/#allow-encoded-slashes-in-urls Cheers, Nicola On 15/06/17 15:35, SAPET, Frederic wrote: Hi Same for me. But It looks like to be related with tools installed via the toolshed (Ie : bedtools, emboss, blast+ suite…). My own tools seem to be ok. Just like you Edgar, nothing in the log… Fred *De :*galaxy-dev [mailto:galaxy-dev-boun...@lists.galaxyproject.org] *De la part de* Fernandez Edgar *Envoyé :* mercredi 14 juin 2017 17:11 *À :* galaxy-...@bx.psu.edu *Objet :* [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hey Guys, Hope everyone is doing ok. I have a small issue with a brand new installation of galaxy-1705. It starts properly and I installed some tools. But when I try to test any tools I get and “Uncaught error” (see picture). I can’t find anywhere in the logs what is happening. Any ideas? Regards, *Edgar Fernandez* System Administrator (Linux) Technologies de l'Information*//* */Université de Montréal/* *//* PAVILLON ROGER-GAUDRY, bureau X-210 ( Bur. : *1-514-343-6111 poste 16568//* ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/ ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught error.
Hello Frederic, I actually just fixed the problem not 5 minutes ago... In your file: /etc/httpd/vhosts.d/galaxy_prod.conf Add the following line: AllowEncodedSlashes NoDecode Please let me know what you think... Regards, Edgar Fernandez System Administrator (Linux) Technologies de l'Information Université de Montréal PAVILLON ROGER-GAUDRY, bureau X-210 * Bur. : 1-514-343-6111 poste 16568 From: SAPET, Frederic [mailto:frederic.sa...@biogemma.com] Sent: June 15, 2017 10:36 AM To: Fernandez Edgar <edgar.fernan...@umontreal.ca>; galaxy-...@bx.psu.edu Subject: RE: [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hi Same for me. But It looks like to be related with tools installed via the toolshed (Ie : bedtools, emboss, blast+ suite...). My own tools seem to be ok. Just like you Edgar, nothing in the log... Fred De : galaxy-dev [mailto:galaxy-dev-boun...@lists.galaxyproject.org] De la part de Fernandez Edgar Envoyé : mercredi 14 juin 2017 17:11 À : galaxy-...@bx.psu.edu<mailto:galaxy-...@bx.psu.edu> Objet : [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hey Guys, Hope everyone is doing ok. I have a small issue with a brand new installation of galaxy-1705. It starts properly and I installed some tools. But when I try to test any tools I get and "Uncaught error" (see picture). I can't find anywhere in the logs what is happening. Any ideas? Regards, Edgar Fernandez System Administrator (Linux) Technologies de l'Information Université de Montréal PAVILLON ROGER-GAUDRY, bureau X-210 * Bur. : 1-514-343-6111 poste 16568 ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
Re: [galaxy-dev] new installation galaxy-17.05 - Uncaught error.
Hi Same for me. But It looks like to be related with tools installed via the toolshed (Ie : bedtools, emboss, blast+ suite...). My own tools seem to be ok. Just like you Edgar, nothing in the log... Fred De : galaxy-dev [mailto:galaxy-dev-boun...@lists.galaxyproject.org] De la part de Fernandez Edgar Envoyé : mercredi 14 juin 2017 17:11 À : galaxy-...@bx.psu.edu Objet : [galaxy-dev] new installation galaxy-17.05 - Uncaught error. Hey Guys, Hope everyone is doing ok. I have a small issue with a brand new installation of galaxy-1705. It starts properly and I installed some tools. But when I try to test any tools I get and "Uncaught error" (see picture). I can't find anywhere in the logs what is happening. Any ideas? Regards, Edgar Fernandez System Administrator (Linux) Technologies de l'Information Université de Montréal PAVILLON ROGER-GAUDRY, bureau X-210 * Bur. : 1-514-343-6111 poste 16568 ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
