Why are all source codes .gz and not .tgz

This topic has 36 replies, 2 voices, and was last updated 7 years, 10 months ago by Anonymous.

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- December 21, 2016 at 5:23 am #2552
  Anonymous
  After getting the license info. I go to designated site and sign in as Academic_User, with password. For all of Rossetta releases, all I see are files with the .gz extension. Downloading these and using gunzip on linux, just gives a binary file-not even executable–Actually need source code anythow. What am I missing? I would have expected files with .tgz, for which I can get the source code (or , I guess the binaries plus source as bundle) to compile. I would like to try and use SnugDock, which I sense from other Forum responses, is only available with 2.3.1. But this issue with the .gz extension prevents me from even checking this. I’ve downloaded 3.3 a year ago–I think it was .tgz and have it compiled–but can’t remember what the actual extension was at the download site at the time. Is SnugDock in version 3.7 somewhere ?
  
  Thank You
  
  Mr. Ignorant.
- December 21, 2016 at 9:30 pm #12026
  Anonymous
  You mention gunzip but not tar. They should be tarballs – .tar.gz or .tgz. Decompress and untar them with tar -xvzf whatever.tgz .
  
  If you mean that you did try tar, and not gunzip, and you still get garbage, let me know exactly which one you tried and I’ll be happy to check if it’s corrupted.
  
  Snugdock should be in 3.7, or the most recent weekly.
- December 21, 2016 at 9:30 pm #12547
  Anonymous
  You mention gunzip but not tar. They should be tarballs – .tar.gz or .tgz. Decompress and untar them with tar -xvzf whatever.tgz .
  
  If you mean that you did try tar, and not gunzip, and you still get garbage, let me know exactly which one you tried and I’ll be happy to check if it’s corrupted.
  
  Snugdock should be in 3.7, or the most recent weekly.
- December 21, 2016 at 9:30 pm #13068
  Anonymous
  You mention gunzip but not tar. They should be tarballs – .tar.gz or .tgz. Decompress and untar them with tar -xvzf whatever.tgz .
  
  If you mean that you did try tar, and not gunzip, and you still get garbage, let me know exactly which one you tried and I’ll be happy to check if it’s corrupted.
  
  Snugdock should be in 3.7, or the most recent weekly.
- December 22, 2016 at 7:34 pm #12036
  Anonymous
  Again, the file I get just has the .gz extension not .tgz.
  
  However,If I do
  
  > tar -xvzf rosetta_src_3.7_bundle.gz
  
  becomes
  
  rosetta_src_2016.32.58837_bundle/
  
  rosetta_src_2016.32.58837_bundle/demos/
  
  rosetta_src_2016.32.58837_bundle/demos/config-public.ru
  
  rosetta_src_2016.32.58837_bundle/demos/pilot/
  
  rosetta_src_2016.32.58837_bundle/demos/pilot/olli/
  
  rosetta_src_2016.32.58837_bundle/demos/pilot/olli/abinitio.cc
  
  etc.
  
  So, I do get a list of all the files and subdirectoires expected, but afterward, do not get the directory created named rosetta_src_3.7_bundle
- December 22, 2016 at 7:34 pm #12557
  Anonymous
  Again, the file I get just has the .gz extension not .tgz.
  
  However,If I do
  
  > tar -xvzf rosetta_src_3.7_bundle.gz
  
  becomes
  
  rosetta_src_2016.32.58837_bundle/
  
  rosetta_src_2016.32.58837_bundle/demos/
  
  rosetta_src_2016.32.58837_bundle/demos/config-public.ru
  
  rosetta_src_2016.32.58837_bundle/demos/pilot/
  
  rosetta_src_2016.32.58837_bundle/demos/pilot/olli/
  
  rosetta_src_2016.32.58837_bundle/demos/pilot/olli/abinitio.cc
  
  etc.
  
  So, I do get a list of all the files and subdirectoires expected, but afterward, do not get the directory created named rosetta_src_3.7_bundle
- December 22, 2016 at 7:34 pm #13078
  Anonymous
  Again, the file I get just has the .gz extension not .tgz.
  
  However,If I do
  
  > tar -xvzf rosetta_src_3.7_bundle.gz
  
  becomes
  
  rosetta_src_2016.32.58837_bundle/
  
  rosetta_src_2016.32.58837_bundle/demos/
  
  rosetta_src_2016.32.58837_bundle/demos/config-public.ru
  
  rosetta_src_2016.32.58837_bundle/demos/pilot/
  
  rosetta_src_2016.32.58837_bundle/demos/pilot/olli/
  
  rosetta_src_2016.32.58837_bundle/demos/pilot/olli/abinitio.cc
  
  etc.
  
  So, I do get a list of all the files and subdirectoires expected, but afterward, do not get the directory created named rosetta_src_3.7_bundle
- December 22, 2016 at 7:42 pm #12037
  Anonymous
  I can’t duplicate the extension changing problem.
  
  That looks more or less like the files you should have; naviagate to main/source and compile it normally. Is that subdirectory not present, or does it not compile….? Can you not find the binaries after compiling?
- December 22, 2016 at 7:42 pm #12558
  Anonymous
  I can’t duplicate the extension changing problem.
  
  That looks more or less like the files you should have; naviagate to main/source and compile it normally. Is that subdirectory not present, or does it not compile….? Can you not find the binaries after compiling?
- December 22, 2016 at 7:42 pm #13079
  Anonymous
  I can’t duplicate the extension changing problem.
  
  That looks more or less like the files you should have; naviagate to main/source and compile it normally. Is that subdirectory not present, or does it not compile….? Can you not find the binaries after compiling?
- December 21, 2016 at 11:36 pm #12028
  Anonymous
  I do not get tarballs–all I get is a file with .gz extension not .tgz. For example I click on “Rosetta 3.7 source”, and save to my downloads dir. and what I get is rosetta_src_3.7_bundle.gz. I tried to email general-support@rosettacommons.org but the mail came back undeliverable. I’ll try license@uw.edu
- December 21, 2016 at 11:36 pm #12549
  Anonymous
  I do not get tarballs–all I get is a file with .gz extension not .tgz. For example I click on “Rosetta 3.7 source”, and save to my downloads dir. and what I get is rosetta_src_3.7_bundle.gz. I tried to email general-support@rosettacommons.org but the mail came back undeliverable. I’ll try license@uw.edu
- December 21, 2016 at 11:36 pm #13070
  Anonymous
  I do not get tarballs–all I get is a file with .gz extension not .tgz. For example I click on “Rosetta 3.7 source”, and save to my downloads dir. and what I get is rosetta_src_3.7_bundle.gz. I tried to email general-support@rosettacommons.org but the mail came back undeliverable. I’ll try license@uw.edu
- December 21, 2016 at 11:36 pm #12027
  Anonymous
  I.
- December 21, 2016 at 11:36 pm #12548
  Anonymous
  I.
- December 21, 2016 at 11:36 pm #13069
  Anonymous
  I.
- December 22, 2016 at 12:51 am #12029
  Anonymous
  They’re just going to send you back here.
  
  I assume the page we are talking about is https://www.rosettacommons.org/downloads/academic/3.7/, and the file we are talking about is rosetta_src_3.7_bundle.tar.gz? Does it match this md5sum (taken from the md5 hashes list on the same page)?:
```
701b66d69132f1641d4cc35ed38a6786 rosetta_src_2016.32.58837_bundle.tgz
```
- December 22, 2016 at 12:51 am #12550
  Anonymous
  They’re just going to send you back here.
  
  I assume the page we are talking about is https://www.rosettacommons.org/downloads/academic/3.7/, and the file we are talking about is rosetta_src_3.7_bundle.tar.gz? Does it match this md5sum (taken from the md5 hashes list on the same page)?:
```
701b66d69132f1641d4cc35ed38a6786 rosetta_src_2016.32.58837_bundle.tgz
```
- December 22, 2016 at 12:51 am #13071
  Anonymous
  They’re just going to send you back here.
  
  I assume the page we are talking about is https://www.rosettacommons.org/downloads/academic/3.7/, and the file we are talking about is rosetta_src_3.7_bundle.tar.gz? Does it match this md5sum (taken from the md5 hashes list on the same page)?:
```
701b66d69132f1641d4cc35ed38a6786 rosetta_src_2016.32.58837_bundle.tgz
```
- December 22, 2016 at 3:35 am #12030
  Anonymous
  Well, when I click on “MD5.checksum ot files” I see “701b66d69132f1641d4cc35ed38a6786 rosetta_src_2016.32.58837_bundle.tgz” in the list–If that is what is meant by “match”, then yes, I think.
  
  Actually, I just found a copy of rosetta_bin_linux_2016.32.58837_bundle.tar (Rosetta 3.2) laying around that I must have downloaded last August, and which appears to have SnugDock. I suppose I can get started with that for now.
- December 22, 2016 at 3:35 am #12551
  Anonymous
  Well, when I click on “MD5.checksum ot files” I see “701b66d69132f1641d4cc35ed38a6786 rosetta_src_2016.32.58837_bundle.tgz” in the list–If that is what is meant by “match”, then yes, I think.
  
  Actually, I just found a copy of rosetta_bin_linux_2016.32.58837_bundle.tar (Rosetta 3.2) laying around that I must have downloaded last August, and which appears to have SnugDock. I suppose I can get started with that for now.
- December 22, 2016 at 3:35 am #13072
  Anonymous
  Well, when I click on “MD5.checksum ot files” I see “701b66d69132f1641d4cc35ed38a6786 rosetta_src_2016.32.58837_bundle.tgz” in the list–If that is what is meant by “match”, then yes, I think.
  
  Actually, I just found a copy of rosetta_bin_linux_2016.32.58837_bundle.tar (Rosetta 3.2) laying around that I must have downloaded last August, and which appears to have SnugDock. I suppose I can get started with that for now.
- December 22, 2016 at 4:08 am #12031
  Anonymous
  I meant for you to calculate the md5sum of whatever file you’ve downloaded. Like so:
  
  >$ md5sum testfile
  
  ad6cfed8bd2700814d31d6fa17f5e00c testfile
- December 22, 2016 at 4:08 am #12552
  Anonymous
  I meant for you to calculate the md5sum of whatever file you’ve downloaded. Like so:
  
  >$ md5sum testfile
  
  ad6cfed8bd2700814d31d6fa17f5e00c testfile
- December 22, 2016 at 4:08 am #13073
  Anonymous
  I meant for you to calculate the md5sum of whatever file you’ve downloaded. Like so:
  
  >$ md5sum testfile
  
  ad6cfed8bd2700814d31d6fa17f5e00c testfile
- December 22, 2016 at 7:49 am #12032
  Anonymous
  Yes, md5sum rosetta_src_3.7_bundle.tar.gz gives
  
  701b66d69132f1641d4cc35ed38a6786
  
  which matches what is given on the download page.
- December 22, 2016 at 7:49 am #12553
  Anonymous
  Yes, md5sum rosetta_src_3.7_bundle.tar.gz gives
  
  701b66d69132f1641d4cc35ed38a6786
  
  which matches what is given on the download page.
- December 22, 2016 at 7:49 am #13074
  Anonymous
  Yes, md5sum rosetta_src_3.7_bundle.tar.gz gives
  
  701b66d69132f1641d4cc35ed38a6786
  
  which matches what is given on the download page.
- December 22, 2016 at 4:13 pm #12035
  Anonymous
  I downloaded it locally to check.
  
  Same file:
  
  -> % gmd5sum rosetta_src_3.7_bundle.tgz
  
  701b66d69132f1641d4cc35ed38a6786 rosetta_src_3.7_bundle.tgz
  
  Untar with:
  
  ~> & tar -xvzf rosetta_src_3.7_bundle.tgz
  
  Becomes:
  
  -> % ll rosetta_src_2016.32.58837_bundle
  
  total 0
  
  drwxr-xr-x@ 25 smlewis staff 850 Aug 10 08:06 demos
  
  drwxr-xr-x@ 36 smlewis staff 1224 Aug 10 08:06 documentation
  
  drwxr-xr-x@ 9 smlewis staff 306 Aug 10 08:06 main
  
  drwxr-xr-x@ 43 smlewis staff 1462 Aug 10 08:06 tools
  
  This builds fine (at least it starts up fine), so the file is OK on my end. What exactly do you get after untarring?
- December 22, 2016 at 4:13 pm #12556
  Anonymous
  I downloaded it locally to check.
  
  Same file:
  
  -> % gmd5sum rosetta_src_3.7_bundle.tgz
  
  701b66d69132f1641d4cc35ed38a6786 rosetta_src_3.7_bundle.tgz
  
  Untar with:
  
  ~> & tar -xvzf rosetta_src_3.7_bundle.tgz
  
  Becomes:
  
  -> % ll rosetta_src_2016.32.58837_bundle
  
  total 0
  
  drwxr-xr-x@ 25 smlewis staff 850 Aug 10 08:06 demos
  
  drwxr-xr-x@ 36 smlewis staff 1224 Aug 10 08:06 documentation
  
  drwxr-xr-x@ 9 smlewis staff 306 Aug 10 08:06 main
  
  drwxr-xr-x@ 43 smlewis staff 1462 Aug 10 08:06 tools
  
  This builds fine (at least it starts up fine), so the file is OK on my end. What exactly do you get after untarring?
- December 22, 2016 at 4:13 pm #13077
  Anonymous
  I downloaded it locally to check.
  
  Same file:
  
  -> % gmd5sum rosetta_src_3.7_bundle.tgz
  
  701b66d69132f1641d4cc35ed38a6786 rosetta_src_3.7_bundle.tgz
  
  Untar with:
  
  ~> & tar -xvzf rosetta_src_3.7_bundle.tgz
  
  Becomes:
  
  -> % ll rosetta_src_2016.32.58837_bundle
  
  total 0
  
  drwxr-xr-x@ 25 smlewis staff 850 Aug 10 08:06 demos
  
  drwxr-xr-x@ 36 smlewis staff 1224 Aug 10 08:06 documentation
  
  drwxr-xr-x@ 9 smlewis staff 306 Aug 10 08:06 main
  
  drwxr-xr-x@ 43 smlewis staff 1462 Aug 10 08:06 tools
  
  This builds fine (at least it starts up fine), so the file is OK on my end. What exactly do you get after untarring?
- December 22, 2016 at 8:36 pm #12038
  Anonymous
  Oh I see. The tar commnd was writing all the files/subdir’s to “rosetta_src_2016.32.58837_bundle” while I was expecting and looking for a dir named “rosetta_src_3.7_bundle” and “rosetta_src_2016.32.58837_bundle” directory already existed for months. Also, I thought the 32 in the name stood for version 3.2 which was confusing me. Anyhow,
  
  I believe this is resolved.
  
  Thanks
- December 22, 2016 at 8:36 pm #12559
  Anonymous
  Oh I see. The tar commnd was writing all the files/subdir’s to “rosetta_src_2016.32.58837_bundle” while I was expecting and looking for a dir named “rosetta_src_3.7_bundle” and “rosetta_src_2016.32.58837_bundle” directory already existed for months. Also, I thought the 32 in the name stood for version 3.2 which was confusing me. Anyhow,
  
  I believe this is resolved.
  
  Thanks
- December 22, 2016 at 8:36 pm #13080
  Anonymous
  Oh I see. The tar commnd was writing all the files/subdir’s to “rosetta_src_2016.32.58837_bundle” while I was expecting and looking for a dir named “rosetta_src_3.7_bundle” and “rosetta_src_2016.32.58837_bundle” directory already existed for months. Also, I thought the 32 in the name stood for version 3.2 which was confusing me. Anyhow,
  
  I believe this is resolved.
  
  Thanks
- December 22, 2016 at 9:11 pm #12039
  Anonymous
  The 32 is from week 32 – Rosetta 3.7 is the week 32 release; we provide ‘numbered’ releases for the convienence of those who have to convince third parties (sysadmins, etc) to update Rosetta for them, and have an easier time doing so with numbered releases. My apologies for the confusion! I will suggest that we rename the files and re-tar them instead of just renaming the tarball next time.
- December 22, 2016 at 9:11 pm #12560
  Anonymous
  The 32 is from week 32 – Rosetta 3.7 is the week 32 release; we provide ‘numbered’ releases for the convienence of those who have to convince third parties (sysadmins, etc) to update Rosetta for them, and have an easier time doing so with numbered releases. My apologies for the confusion! I will suggest that we rename the files and re-tar them instead of just renaming the tarball next time.
- December 22, 2016 at 9:11 pm #13081
  Anonymous
  The 32 is from week 32 – Rosetta 3.7 is the week 32 release; we provide ‘numbered’ releases for the convienence of those who have to convince third parties (sysadmins, etc) to update Rosetta for them, and have an easier time doing so with numbered releases. My apologies for the confusion! I will suggest that we rename the files and re-tar them instead of just renaming the tarball next time.
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