From ad189ee2894bbaf5de2d7c51a97c2567a99efb1d Mon Sep 17 00:00:00 2001 From: krishna Date: Wed, 10 Jun 2026 10:21:02 -0500 Subject: [PATCH 01/23] DRS changes for _list_object() and DownloadManager.download() --- .../_modules/gen3/tools/download/drs_download.html | 3 ++- gen3/tools/download/drs_download.py | 14 +++++++++++--- tests/download_tests/test_download.py | 14 ++++++-------- 3 files changed, 19 insertions(+), 12 deletions(-) diff --git a/docs/_build/html/_modules/gen3/tools/download/drs_download.html b/docs/_build/html/_modules/gen3/tools/download/drs_download.html index 27f9b7d3..c1312149 100644 --- a/docs/_build/html/_modules/gen3/tools/download/drs_download.html +++ b/docs/_build/html/_modules/gen3/tools/download/drs_download.html @@ -775,7 +775,7 @@

Source code for gen3.tools.download.drs_download

drs_hostname: str, object_id: str, access_method: str, access_token: str ) -> Optional[str]: """ - Returns the presigned URL for a DRS object, from a DRS hostname, via the access method + Returns the presigned URL and status code from the response for a DRS object, from a DRS hostname, via the access method Args: drs_hostname (str): hostname of DRS server object_id (str): DRS object id @@ -784,6 +784,7 @@

Source code for gen3.tools.download.drs_download

Returns: presigned url to object + status code from the response """ headers = { "Content-Type": "application/json", diff --git a/gen3/tools/download/drs_download.py b/gen3/tools/download/drs_download.py index 2a4ec04a..c37d99e4 100644 --- a/gen3/tools/download/drs_download.py +++ b/gen3/tools/download/drs_download.py @@ -279,6 +279,7 @@ class DownloadStatus: status: str = "pending" start_time: Optional[datetime] = None end_time: Optional[datetime] = None + status_code: Optional[str] = None def __str__(self): return ( @@ -727,6 +728,7 @@ def get_download_url_using_drs( Returns: presigned url to object + status code """ headers = { "Content-Type": "application/json", @@ -740,7 +742,7 @@ def get_download_url_using_drs( ) response.raise_for_status() data = response.json() - return data.get("url", None) + return data.get("url", None), response.status_code except requests.exceptions.Timeout: logger.critical(f"Was unable to download: {object_id}. Timeout Error.") @@ -748,7 +750,8 @@ def get_download_url_using_drs( logger.critical( f"HTTP Error ({exc.response.status_code}) when requesting download url from {access_method}" ) - return None + return None, exc.response.status_code + return None, None def get_user_auth(commons_url: str, access_token: str) -> Optional[List[str]]: @@ -1036,7 +1039,7 @@ def download( continue access_method = entry.access_methods[0]["access_id"] - download_url = get_download_url_using_drs( + download_url, status_code = get_download_url_using_drs( drs_hostname, entry.object_id, access_method, @@ -1044,6 +1047,8 @@ def download( ) if download_url is None: + if status_code != 200: + completed[entry.object_id].error_code = status_code completed[entry.object_id].status = "error" continue @@ -1276,6 +1281,9 @@ def _list_object(hostname, auth, object_id: str) -> bool: hostname=hostname, auth=auth, download_list=object_list, show_progress=False ) + if not object_list: + return False + for x in object_list: print(x.pprint()) diff --git a/tests/download_tests/test_download.py b/tests/download_tests/test_download.py index b94cb0b0..f761aecf 100644 --- a/tests/download_tests/test_download.py +++ b/tests/download_tests/test_download.py @@ -348,10 +348,9 @@ def test_download_file_from_url_failures(download_dir): text="1234567890", status_code=500, ) - assert ( - get_download_url_using_drs("test.commons1.io", "blah", "s3", "bad token") - is None - ) + assert get_download_url_using_drs( + "test.commons1.io", "blah", "s3", "bad token" + ) is (None, None) assert ( download_file_from_url( @@ -366,10 +365,9 @@ def test_download_file_from_url_failures(download_dir): url=f"https://test.commons1.io/ga4gh/drs/v1/objects/blah/access/s3", exc=requests.exceptions.Timeout, ) - assert ( - get_download_url_using_drs("test.commons1.io", "blah", "s3", "bad token") - is None - ) + assert get_download_url_using_drs( + "test.commons1.io", "blah", "s3", "bad token" + ) is (None, None) try: download_file_from_url( From 85381d45c27b70c87aab835ae7b09d47a1e6e682 Mon Sep 17 00:00:00 2001 From: krishnaa05 Date: Wed, 10 Jun 2026 15:22:21 +0000 Subject: [PATCH 02/23] Apply automatic documentation changes --- docs/_build/doctrees/tools/drs_pull.doctree | Bin 135470 -> 137062 bytes .../gen3/tools/download/drs_download.html | 17 ++++++++++++----- docs/_build/html/searchindex.js | 2 +- docs/_build/html/tools/drs_pull.html | 2 +- 4 files changed, 14 insertions(+), 7 deletions(-) diff --git a/docs/_build/doctrees/tools/drs_pull.doctree b/docs/_build/doctrees/tools/drs_pull.doctree index 335555fed37eaf4ec688e26c00905aa6a3a23d8d..8f9aabb6ea6edf770d395fa1d75f7a1d164530f8 100644 GIT binary patch delta 14057 zcma)DdtB7T+V>d&K@paVxC?uOgH9o0zx~0&@p$;-w=?t1<(cpE%rnnC zGi-h}_?yka0rLXOVQWBaIc(v!@@1i^_M)lzQ>PV;dUVoQKKZNYs?FtV8B}mj`Mk!o zIPumnXkB&Tg|(6VzL&yUS^Zijr?#rkKUP-I;*qj~Hl==L^UI3Mo-Ru+i1p6p@P>tN zF`3v?;XJc<3Y5x%Y@;m5w>jZOUioGQQpJD?a4)=xq`f6-F?uLs}f>_*V+XmWfpe9 zVSX0R-X6wRZw+V54dUodNDo;`eVe@_4PxYMh~YQ3X0S^Cj$2~$mvJVGlh{&&h!2J& zA45c0j732#iOn+b;+2+_;Q?XTmt>cQ9cU1nr$bLZxM~SbOe`+}H*fJ?Y`}41r}QNg zJAr_e_KrVBP2vigOHO3#&}n1x3#=r0`y*xEL%ia>1VU@id+GFJ_%ND>Y%>_Y#dgyQ zk_$d+&=7|`%rmzM_LKiS!jNzoxlMuL3?kI*Z_&8E*}DS_5zU&3tpgy1wTTcl3t==L zTpdBbpvrVYHqZL|N*%V1YYp686UP2Gg16aeW5Xi|xP%9> zsXuU$e!%5L@XGh%X$m`ccJLwBd{?yTNo?2%xk%)DNQ9^iM1F_un!%>{PdFOMlOhy; z^ELdQrQv<}#qdu*as-rN5kGn{jvMwwvlk_d(=`ZT6|dYIB}NxRC|eaFGL}IiKlgq# zdk0~BAd_u~;F-fy`Q*KA8`igBtD3!OKAnp}E>=p|;aMKP&)KkiE+UJd!z65wOpwD6 zOj!bwy&E*lHz0Eg^K+Dvn4d!=CFVSHNpGINdzlWoxyB5?@~$;jc1@vum8R>brba)s zf6~!DQn(Nz`dbPyet8!gRr+5qw?w+ zZ$_TdBc;aMkhKPefGFljrSZtM()j%$8u)#YLJHp(SykXaO(_Zf(~$&zz(8DwVnuf} zk_G#_$2_lBT%=cAL>05D>h^bQ4zEexa}P$cib!daw_-sCW<=&DaI!U#{L6z=;3J+_ z+mkZOYX`s)%-F=a2O*wH);?*e>V9Z5z}HwT_Y^qK;}5&xUouZy%6ZlEZP_zs{&Zx6 zfoGnwh$Hz>$U>v|;cM-%mNe~fh6f%ktvY`)2)HyHE6n z&#~Mpwv2*w-s4O=Y&Gj-LDkVSEkKN%0G*&MFTQA9IcX@L_gP%knzPvGol6#e>cT8` zCQ{gkLjkmzs3$ye@!+q|&Oh1*2_Z40lY58$^th*6yUpD{p=1`VJwWIhba||1( zT4WhT@hi}tJxrDIc(1MlNHu&FH(O%ZL|;Yep-`VV!aRKha#5BVm5ZVgSL?*|8(rD! 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status: str = "pending" start_time: Optional[datetime] = None end_time: Optional[datetime] = None + status_code: Optional[str] = None def __str__(self): return ( @@ -775,7 +776,7 @@

Source code for gen3.tools.download.drs_download

drs_hostname: str, object_id: str, access_method: str, access_token: str ) -> Optional[str]: """ - Returns the presigned URL and status code from the response for a DRS object, from a DRS hostname, via the access method + Returns the presigned URL for a DRS object, from a DRS hostname, via the access method Args: drs_hostname (str): hostname of DRS server object_id (str): DRS object id @@ -784,7 +785,7 @@

Source code for gen3.tools.download.drs_download

Returns: presigned url to object - status code from the response + status code """ headers = { "Content-Type": "application/json", @@ -798,7 +799,7 @@

Source code for gen3.tools.download.drs_download

) response.raise_for_status() data = response.json() - return data.get("url", None) + return data.get("url", None), response.status_code except requests.exceptions.Timeout: logger.critical(f"Was unable to download: {object_id}. Timeout Error.") @@ -806,7 +807,8 @@

Source code for gen3.tools.download.drs_download

logger.critical( f"HTTP Error ({exc.response.status_code}) when requesting download url from {access_method}" ) - return None + return None, exc.response.status_code + return None, None def get_user_auth(commons_url: str, access_token: str) -> Optional[List[str]]: @@ -1107,7 +1109,7 @@

Source code for gen3.tools.download.drs_download

continue access_method = entry.access_methods[0]["access_id"] - download_url = get_download_url_using_drs( + download_url, status_code = get_download_url_using_drs( drs_hostname, entry.object_id, access_method, @@ -1115,6 +1117,8 @@

Source code for gen3.tools.download.drs_download

) if download_url is None: + if status_code != 200: + completed[entry.object_id].error_code = status_code completed[entry.object_id].status = "error" continue @@ -1352,6 +1356,9 @@

Source code for gen3.tools.download.drs_download

hostname=hostname, auth=auth, download_list=object_list, show_progress=False ) + if not object_list: + return False + for x in object_list: print(x.pprint()) diff --git a/docs/_build/html/searchindex.js b/docs/_build/html/searchindex.js index a1ce8906..9928858b 100644 --- a/docs/_build/html/searchindex.js +++ b/docs/_build/html/searchindex.js @@ -1 +1 @@ -Search.setIndex({"alltitles":{"DRS Download Tools":[[10,null]],"Download":[[11,"module-gen3.tools.indexing.download_manifest"]],"Gen3 Auth Helper":[[0,null]],"Gen3 File Class":[[1,null]],"Gen3 Index Class":[[3,null]],"Gen3 Jobs Class":[[4,null]],"Gen3 Metadata Class":[[5,null]],"Gen3 Object Class":[[6,null]],"Gen3 Query Class":[[7,null]],"Gen3 Submission Class":[[8,null]],"Gen3 Tools":[[9,null]],"Gen3 Workspace Storage":[[13,null]],"Index":[[11,"module-gen3.tools.indexing.index_manifest"]],"Indexing Tools":[[11,null]],"Indices and tables":[[2,"indices-and-tables"]],"Ingest":[[12,"module-gen3.tools.metadata.ingest_manifest"]],"Metadata 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-class gen3.tools.download.drs_download.DownloadStatus(filename: str, status: str = 'pending', start_time: datetime | None = None, end_time: datetime | None = None)[source]
+class gen3.tools.download.drs_download.DownloadStatus(filename: str, status: str = 'pending', start_time: datetime | None = None, end_time: datetime | None = None, status_code: str | None = None)[source]

Stores the download status of objectIDs.

The DataManager will return a list of DownloadStatus as a result of calling the download method

Status is “pending” until it is downloaded or an error occurs. From c206e3a71f0d41f246131e62af96f3ba35519419 Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 10:27:23 -0500 Subject: [PATCH 03/23] Update test_download.py --- tests/download_tests/test_download.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/tests/download_tests/test_download.py b/tests/download_tests/test_download.py index f761aecf..aeff95d1 100644 --- a/tests/download_tests/test_download.py +++ b/tests/download_tests/test_download.py @@ -350,7 +350,7 @@ def test_download_file_from_url_failures(download_dir): ) assert get_download_url_using_drs( "test.commons1.io", "blah", "s3", "bad token" - ) is (None, None) + ) is (None, 500) assert ( download_file_from_url( From 2e044619ba82c5f19511e61dedeff5b1a9690bbc Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 10:31:38 -0500 Subject: [PATCH 04/23] Update test_download.py --- tests/download_tests/test_download.py | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/tests/download_tests/test_download.py b/tests/download_tests/test_download.py index aeff95d1..f0fb70c6 100644 --- a/tests/download_tests/test_download.py +++ b/tests/download_tests/test_download.py @@ -350,7 +350,7 @@ def test_download_file_from_url_failures(download_dir): ) assert get_download_url_using_drs( "test.commons1.io", "blah", "s3", "bad token" - ) is (None, 500) + ) == (None, 500) assert ( download_file_from_url( @@ -367,7 +367,7 @@ def test_download_file_from_url_failures(download_dir): ) assert get_download_url_using_drs( "test.commons1.io", "blah", "s3", "bad token" - ) is (None, None) + ) == (None, None) try: download_file_from_url( From 88ee99c7ca56d0dab9e4dd6381d6e9a2baa560a3 Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 10:34:04 -0500 Subject: [PATCH 05/23] Update drs_download.py --- gen3/tools/download/drs_download.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/gen3/tools/download/drs_download.py b/gen3/tools/download/drs_download.py index c37d99e4..8c6d36af 100644 --- a/gen3/tools/download/drs_download.py +++ b/gen3/tools/download/drs_download.py @@ -1048,7 +1048,7 @@ def download( if download_url is None: if status_code != 200: - completed[entry.object_id].error_code = status_code + completed[entry.object_id].status_code = status_code completed[entry.object_id].status = "error" continue From 4386bf8e14710a088639265257bed9dd4cef6ffb Mon Sep 17 00:00:00 2001 From: krishnaa05 Date: Wed, 10 Jun 2026 15:35:11 +0000 Subject: [PATCH 06/23] Apply automatic documentation changes --- docs/_build/html/_modules/gen3/tools/download/drs_download.html | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/_build/html/_modules/gen3/tools/download/drs_download.html b/docs/_build/html/_modules/gen3/tools/download/drs_download.html index a851c953..20d32614 100644 --- a/docs/_build/html/_modules/gen3/tools/download/drs_download.html +++ b/docs/_build/html/_modules/gen3/tools/download/drs_download.html @@ -1118,7 +1118,7 @@

Source code for gen3.tools.download.drs_download

if download_url is None: if status_code != 200: - completed[entry.object_id].error_code = status_code + completed[entry.object_id].status_code = status_code completed[entry.object_id].status = "error" continue From 422de93d91136e18f7abf3bea1a7676f37f4c79e Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 11:35:20 -0500 Subject: [PATCH 07/23] Update drs_download.py --- gen3/tools/download/drs_download.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/gen3/tools/download/drs_download.py b/gen3/tools/download/drs_download.py index 8c6d36af..22757472 100644 --- a/gen3/tools/download/drs_download.py +++ b/gen3/tools/download/drs_download.py @@ -279,7 +279,7 @@ class DownloadStatus: status: str = "pending" start_time: Optional[datetime] = None end_time: Optional[datetime] = None - status_code: Optional[str] = None + status_code: Tuple[Optional[str], Optional[int]] = None def __str__(self): return ( From 1eb1c3bedba8f50849aeb878c1c57389cc384f03 Mon Sep 17 00:00:00 2001 From: krishnaa05 Date: Wed, 10 Jun 2026 16:36:22 +0000 Subject: [PATCH 08/23] Apply automatic documentation changes --- docs/_build/doctrees/tools/drs_pull.doctree | Bin 137062 -> 138384 bytes .../gen3/tools/download/drs_download.html | 2 +- docs/_build/html/searchindex.js | 2 +- docs/_build/html/tools/drs_pull.html | 2 +- 4 files changed, 3 insertions(+), 3 deletions(-) diff --git a/docs/_build/doctrees/tools/drs_pull.doctree b/docs/_build/doctrees/tools/drs_pull.doctree index 8f9aabb6ea6edf770d395fa1d75f7a1d164530f8..c826ad83e099c3b9985fe1638634b78a58d8fa6b 100644 GIT binary patch delta 15762 zcma)Dd0V9vI2rK#H&3j$d)m6W$?pIx} z^VizYW$%Or&kb26>VgwiQKON(>VGmGn?7^O#L5W;znd}TfpNpDrcZOta`m5FIWEsN zv2wb3KSF*mjF#08c_voSHltwG(%c*B<+_C>8Pp-BKK0p6QMtuc)61vNs2VwD^4M{m zUH^4JWAnMhda<#Xk{thqPi`i1HV;u8#{HY_G}c^+Y#rt^NR~BFvYaxS5{*H%F~-QG zSlVusz3MPZRjg;Eq^u5Jx)YrP{UuY|l 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status: str = "pending" start_time: Optional[datetime] = None end_time: Optional[datetime] = None - status_code: Optional[str] = None + status_code: Tuple[Optional[str], Optional[int]] = None def __str__(self): return ( diff --git a/docs/_build/html/searchindex.js b/docs/_build/html/searchindex.js index 9928858b..aa058461 100644 --- a/docs/_build/html/searchindex.js +++ b/docs/_build/html/searchindex.js @@ -1 +1 @@ -Search.setIndex({"alltitles":{"DRS Download Tools":[[10,null]],"Download":[[11,"module-gen3.tools.indexing.download_manifest"]],"Gen3 Auth Helper":[[0,null]],"Gen3 File Class":[[1,null]],"Gen3 Index Class":[[3,null]],"Gen3 Jobs Class":[[4,null]],"Gen3 Metadata Class":[[5,null]],"Gen3 Object Class":[[6,null]],"Gen3 Query Class":[[7,null]],"Gen3 Submission Class":[[8,null]],"Gen3 Tools":[[9,null]],"Gen3 Workspace Storage":[[13,null]],"Index":[[11,"module-gen3.tools.indexing.index_manifest"]],"Indexing Tools":[[11,null]],"Indices and tables":[[2,"indices-and-tables"]],"Ingest":[[12,"module-gen3.tools.metadata.ingest_manifest"]],"Metadata Tools":[[12,null]],"Verify":[[11,"module-gen3.tools.indexing.verify_manifest"]],"Welcome to Gen3 SDK\u2019s documentation!":[[2,null]]},"docnames":["auth","file","index","indexing","jobs","metadata","object","query","submission","tools","tools/drs_pull","tools/indexing","tools/metadata","wss"],"envversion":{"sphinx":66,"sphinx.domains.c":3,"sphinx.domains.changeset":1,"sphinx.domains.citation":1,"sphinx.domains.cpp":9,"sphinx.domains.index":1,"sphinx.domains.javascript":3,"sphinx.domains.math":2,"sphinx.domains.python":4,"sphinx.domains.rst":2,"sphinx.domains.std":2,"sphinx.ext.viewcode":1},"filenames":["auth.rst","file.rst","index.rst","indexing.rst","jobs.rst","metadata.rst","object.rst","query.rst","submission.rst","tools.rst","tools/drs_pull.rst","tools/indexing.rst","tools/metadata.rst","wss.rst"],"indexentries":{"_manager (gen3.tools.download.drs_download.downloadable attribute)":[[10,"gen3.tools.download.drs_download.Downloadable._manager",false]],"access_methods (gen3.tools.download.drs_download.downloadable attribute)":[[10,"gen3.tools.download.drs_download.Downloadable.access_methods",false]],"acls (in module gen3.tools.indexing.index_manifest)":[[11,"gen3.tools.indexing.index_manifest.ACLS",false]],"async_create() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_create",false]],"async_create_aliases() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_create_aliases",false]],"async_create_record() (gen3.index.gen3index method)":[[3,"gen3.index.Gen3Index.async_create_record",false]],"async_delete_alias() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_delete_alias",false]],"async_delete_aliases() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_delete_aliases",false]],"async_download_object_manifest() (in module gen3.tools.indexing.download_manifest)":[[11,"gen3.tools.indexing.download_manifest.async_download_object_manifest",false]],"async_get() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_get",false]],"async_get_aliases() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_get_aliases",false]],"async_get_record() (gen3.index.gen3index method)":[[3,"gen3.index.Gen3Index.async_get_record",false]],"async_get_records_from_checksum() (gen3.index.gen3index method)":[[3,"gen3.index.Gen3Index.async_get_records_from_checksum",false]],"async_get_records_on_page() (gen3.index.gen3index method)":[[3,"gen3.index.Gen3Index.async_get_records_on_page",false]],"async_get_with_params() (gen3.index.gen3index method)":[[3,"gen3.index.Gen3Index.async_get_with_params",false]],"async_ingest_metadata_manifest() (in module gen3.tools.metadata.ingest_manifest)":[[12,"gen3.tools.metadata.ingest_manifest.async_ingest_metadata_manifest",false]],"async_query_urls() 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Auth Helper","Gen3 File Class","Welcome to Gen3 SDK\u2019s documentation!","Gen3 Index Class","Gen3 Jobs Class","Gen3 Metadata Class","Gen3 Object Class","Gen3 Query Class","Gen3 Submission Class","Gen3 Tools","DRS Download Tools","Indexing Tools","Metadata Tools","Gen3 Workspace Storage"],"titleterms":{"auth":0,"class":[1,3,4,5,6,7,8],"document":2,"download":[10,11],"drs":10,"file":1,"gen3":[0,1,2,3,4,5,6,7,8,9,13],"helper":0,"index":[3,11],"indic":2,"ingest":12,"job":4,"metadata":[5,12],"object":6,"queri":7,"s":2,"sdk":2,"storag":13,"submiss":8,"tabl":2,"tool":[9,10,11,12],"verifi":11,"welcom":2,"workspac":13}}) \ No newline at end of file diff --git a/docs/_build/html/tools/drs_pull.html b/docs/_build/html/tools/drs_pull.html index 4d0bcbfb..2eaea46f 100644 --- a/docs/_build/html/tools/drs_pull.html +++ b/docs/_build/html/tools/drs_pull.html @@ -131,7 +131,7 @@
-class gen3.tools.download.drs_download.DownloadStatus(filename: str, status: str = 'pending', start_time: datetime | None = None, end_time: datetime | None = None, status_code: str | None = None)[source]
+class gen3.tools.download.drs_download.DownloadStatus(filename: str, status: str = 'pending', start_time: datetime | None = None, end_time: datetime | None = None, status_code: Tuple[str | None, int | None] = None)[source]

Stores the download status of objectIDs.

The DataManager will return a list of DownloadStatus as a result of calling the download method

Status is “pending” until it is downloaded or an error occurs. From 24ac04599e59b265edcf7f1365d55dba538079d9 Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 11:39:11 -0500 Subject: [PATCH 09/23] Update drs_download.py --- gen3/tools/download/drs_download.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/gen3/tools/download/drs_download.py b/gen3/tools/download/drs_download.py index 22757472..8c6d36af 100644 --- a/gen3/tools/download/drs_download.py +++ b/gen3/tools/download/drs_download.py @@ -279,7 +279,7 @@ class DownloadStatus: status: str = "pending" start_time: Optional[datetime] = None end_time: Optional[datetime] = None - status_code: Tuple[Optional[str], Optional[int]] = None + status_code: Optional[str] = None def __str__(self): return ( From a43db9a5dc082de259ffc3add375373621cdc670 Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 11:39:33 -0500 Subject: [PATCH 10/23] Update drs_download.py --- gen3/tools/download/drs_download.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/gen3/tools/download/drs_download.py b/gen3/tools/download/drs_download.py index 8c6d36af..bb4d5bd3 100644 --- a/gen3/tools/download/drs_download.py +++ b/gen3/tools/download/drs_download.py @@ -279,7 +279,7 @@ class DownloadStatus: status: str = "pending" start_time: Optional[datetime] = None end_time: Optional[datetime] = None - status_code: Optional[str] = None + status_code: Optional[int] = None def __str__(self): return ( From 8d5ec0a4d67af5edcc5337b7c8f807d0d2669a85 Mon Sep 17 00:00:00 2001 From: krishnaa05 Date: Wed, 10 Jun 2026 16:40:35 +0000 Subject: [PATCH 11/23] Apply automatic documentation changes --- docs/_build/doctrees/tools/drs_pull.doctree | Bin 138384 -> 137062 bytes .../gen3/tools/download/drs_download.html | 2 +- docs/_build/html/searchindex.js | 2 +- docs/_build/html/tools/drs_pull.html | 2 +- 4 files changed, 3 insertions(+), 3 deletions(-) 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zS;rh)7xBk*K7!zB#b2Z&_)@`_O1|9f!sTAR#Bx!Ti~64D_`=m^PYIXYxZ3IYk}q6D z^GxNs0hebyZFs+ER73>Hh&cK?r{U diff --git a/docs/_build/html/_modules/gen3/tools/download/drs_download.html b/docs/_build/html/_modules/gen3/tools/download/drs_download.html index 938a124b..42a26441 100644 --- a/docs/_build/html/_modules/gen3/tools/download/drs_download.html +++ b/docs/_build/html/_modules/gen3/tools/download/drs_download.html @@ -335,7 +335,7 @@

Source code for gen3.tools.download.drs_download

status: str = "pending" start_time: Optional[datetime] = None end_time: Optional[datetime] = None - status_code: Tuple[Optional[str], Optional[int]] = None + status_code: Optional[int] = None def __str__(self): return ( diff --git a/docs/_build/html/searchindex.js b/docs/_build/html/searchindex.js index aa058461..9928858b 100644 --- a/docs/_build/html/searchindex.js +++ b/docs/_build/html/searchindex.js @@ -1 +1 @@ -Search.setIndex({"alltitles":{"DRS Download Tools":[[10,null]],"Download":[[11,"module-gen3.tools.indexing.download_manifest"]],"Gen3 Auth Helper":[[0,null]],"Gen3 File Class":[[1,null]],"Gen3 Index Class":[[3,null]],"Gen3 Jobs Class":[[4,null]],"Gen3 Metadata Class":[[5,null]],"Gen3 Object Class":[[6,null]],"Gen3 Query Class":[[7,null]],"Gen3 Submission Class":[[8,null]],"Gen3 Tools":[[9,null]],"Gen3 Workspace Storage":[[13,null]],"Index":[[11,"module-gen3.tools.indexing.index_manifest"]],"Indexing Tools":[[11,null]],"Indices and tables":[[2,"indices-and-tables"]],"Ingest":[[12,"module-gen3.tools.metadata.ingest_manifest"]],"Metadata Tools":[[12,null]],"Verify":[[11,"module-gen3.tools.indexing.verify_manifest"]],"Welcome to Gen3 SDK\u2019s documentation!":[[2,null]]},"docnames":["auth","file","index","indexing","jobs","metadata","object","query","submission","tools","tools/drs_pull","tools/indexing","tools/metadata","wss"],"envversion":{"sphinx":66,"sphinx.domains.c":3,"sphinx.domains.changeset":1,"sphinx.domains.citation":1,"sphinx.domains.cpp":9,"sphinx.domains.index":1,"sphinx.domains.javascript":3,"sphinx.domains.math":2,"sphinx.domains.python":4,"sphinx.domains.rst":2,"sphinx.domains.std":2,"sphinx.ext.viewcode":1},"filenames":["auth.rst","file.rst","index.rst","indexing.rst","jobs.rst","metadata.rst","object.rst","query.rst","submission.rst","tools.rst","tools/drs_pull.rst","tools/indexing.rst","tools/metadata.rst","wss.rst"],"indexentries":{"_manager (gen3.tools.download.drs_download.downloadable attribute)":[[10,"gen3.tools.download.drs_download.Downloadable._manager",false]],"access_methods (gen3.tools.download.drs_download.downloadable attribute)":[[10,"gen3.tools.download.drs_download.Downloadable.access_methods",false]],"acls (in module gen3.tools.indexing.index_manifest)":[[11,"gen3.tools.indexing.index_manifest.ACLS",false]],"async_create() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_create",false]],"async_create_aliases() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_create_aliases",false]],"async_create_record() (gen3.index.gen3index method)":[[3,"gen3.index.Gen3Index.async_create_record",false]],"async_delete_alias() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_delete_alias",false]],"async_delete_aliases() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_delete_aliases",false]],"async_download_object_manifest() (in module gen3.tools.indexing.download_manifest)":[[11,"gen3.tools.indexing.download_manifest.async_download_object_manifest",false]],"async_get() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_get",false]],"async_get_aliases() (gen3.metadata.gen3metadata method)":[[5,"gen3.metadata.Gen3Metadata.async_get_aliases",false]],"async_get_record() (gen3.index.gen3index method)":[[3,"gen3.index.Gen3Index.async_get_record",false]],"async_get_records_from_checksum() (gen3.index.gen3index method)":[[3,"gen3.index.Gen3Index.async_get_records_from_checksum",false]],"async_get_records_on_page() (gen3.index.gen3index method)":[[3,"gen3.index.Gen3Index.async_get_records_on_page",false]],"async_get_with_params() (gen3.index.gen3index method)":[[3,"gen3.index.Gen3Index.async_get_with_params",false]],"async_ingest_metadata_manifest() (in module gen3.tools.metadata.ingest_manifest)":[[12,"gen3.tools.metadata.ingest_manifest.async_ingest_metadata_manifest",false]],"async_query_urls() 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-class gen3.tools.download.drs_download.DownloadStatus(filename: str, status: str = 'pending', start_time: datetime | None = None, end_time: datetime | None = None, status_code: Tuple[str | None, int | None] = None)[source]
+class gen3.tools.download.drs_download.DownloadStatus(filename: str, status: str = 'pending', start_time: datetime | None = None, end_time: datetime | None = None, status_code: int | None = None)[source]

Stores the download status of objectIDs.

The DataManager will return a list of DownloadStatus as a result of calling the download method

Status is “pending” until it is downloaded or an error occurs. From 52596253b3816ec24ca9b4b6865a4832225bd00d Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 11:40:41 -0500 Subject: [PATCH 12/23] Update drs_download.py --- gen3/tools/download/drs_download.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/gen3/tools/download/drs_download.py b/gen3/tools/download/drs_download.py index bb4d5bd3..eb9aded3 100644 --- a/gen3/tools/download/drs_download.py +++ b/gen3/tools/download/drs_download.py @@ -717,7 +717,7 @@ def ensure_dirpath_exists(path: Path) -> Path: def get_download_url_using_drs( drs_hostname: str, object_id: str, access_method: str, access_token: str -) -> Optional[str]: +) -> Tuple[Optional[str], Optional[int]]: """ Returns the presigned URL for a DRS object, from a DRS hostname, via the access method Args: From 9f5b5cac22db1e69345b1a569921519e57fe7fc4 Mon Sep 17 00:00:00 2001 From: krishnaa05 Date: Wed, 10 Jun 2026 16:41:45 +0000 Subject: [PATCH 13/23] Apply automatic documentation changes --- docs/_build/html/_modules/gen3/tools/download/drs_download.html | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/_build/html/_modules/gen3/tools/download/drs_download.html b/docs/_build/html/_modules/gen3/tools/download/drs_download.html index 42a26441..792bb17f 100644 --- a/docs/_build/html/_modules/gen3/tools/download/drs_download.html +++ b/docs/_build/html/_modules/gen3/tools/download/drs_download.html @@ -774,7 +774,7 @@

Source code for gen3.tools.download.drs_download

def get_download_url_using_drs( drs_hostname: str, object_id: str, access_method: str, access_token: str -) -> Optional[str]: +) -> Tuple[Optional[str], Optional[int]]: """ Returns the presigned URL for a DRS object, from a DRS hostname, via the access method Args: From 5e3fddc63a14c3bd994159ba6a09a6d8a3a33f39 Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 11:48:44 -0500 Subject: [PATCH 14/23] Update drs_download.py From 46010cc6aef8aa1e06c368cc61edbf20559b3262 Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 11:51:41 -0500 Subject: [PATCH 15/23] Update drs_download.py --- gen3/tools/download/drs_download.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/gen3/tools/download/drs_download.py b/gen3/tools/download/drs_download.py index eb9aded3..78502bbc 100644 --- a/gen3/tools/download/drs_download.py +++ b/gen3/tools/download/drs_download.py @@ -728,7 +728,7 @@ def get_download_url_using_drs( Returns: presigned url to object - status code + status-code """ headers = { "Content-Type": "application/json", From 441cfc57553cc4c7a092fa4c6117b7cc5d29d510 Mon Sep 17 00:00:00 2001 From: krishnaa05 Date: Wed, 10 Jun 2026 16:52:41 +0000 Subject: [PATCH 16/23] Apply automatic documentation changes --- docs/_build/html/_modules/gen3/tools/download/drs_download.html | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/_build/html/_modules/gen3/tools/download/drs_download.html b/docs/_build/html/_modules/gen3/tools/download/drs_download.html index 792bb17f..8d9c6422 100644 --- a/docs/_build/html/_modules/gen3/tools/download/drs_download.html +++ b/docs/_build/html/_modules/gen3/tools/download/drs_download.html @@ -785,7 +785,7 @@

Source code for gen3.tools.download.drs_download

Returns: presigned url to object - status code + status-code """ headers = { "Content-Type": "application/json", From e9120a4a9feab017619e9649a5cad0c4f1a6f660 Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 11:54:09 -0500 Subject: [PATCH 17/23] Dummy Commit From b757bdbb589c51631704920812c3df0f0c14ef57 Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 11:55:27 -0500 Subject: [PATCH 18/23] Update drs_download.py --- gen3/tools/download/drs_download.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/gen3/tools/download/drs_download.py b/gen3/tools/download/drs_download.py index 78502bbc..f64a4972 100644 --- a/gen3/tools/download/drs_download.py +++ b/gen3/tools/download/drs_download.py @@ -717,7 +717,7 @@ def ensure_dirpath_exists(path: Path) -> Path: def get_download_url_using_drs( drs_hostname: str, object_id: str, access_method: str, access_token: str -) -> Tuple[Optional[str], Optional[int]]: +) -> Tuple[Optional[int], Optional[str]]: """ Returns the presigned URL for a DRS object, from a DRS hostname, via the access method Args: From 875fab63f26ca0adfa93047a271b4383d08c5473 Mon Sep 17 00:00:00 2001 From: krishnaa05 Date: Wed, 10 Jun 2026 16:56:37 +0000 Subject: [PATCH 19/23] Apply automatic documentation changes --- docs/_build/html/_modules/gen3/tools/download/drs_download.html | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/_build/html/_modules/gen3/tools/download/drs_download.html b/docs/_build/html/_modules/gen3/tools/download/drs_download.html index 8d9c6422..32fb9080 100644 --- a/docs/_build/html/_modules/gen3/tools/download/drs_download.html +++ b/docs/_build/html/_modules/gen3/tools/download/drs_download.html @@ -774,7 +774,7 @@

Source code for gen3.tools.download.drs_download

def get_download_url_using_drs( drs_hostname: str, object_id: str, access_method: str, access_token: str -) -> Tuple[Optional[str], Optional[int]]: +) -> Tuple[Optional[int], Optional[str]]: """ Returns the presigned URL for a DRS object, from a DRS hostname, via the access method Args: From 4056d838080ca9752aeca04bf8c59f182c914a85 Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 11:58:06 -0500 Subject: [PATCH 20/23] Update drs_download.py --- gen3/tools/download/drs_download.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/gen3/tools/download/drs_download.py b/gen3/tools/download/drs_download.py index f64a4972..e1c5a156 100644 --- a/gen3/tools/download/drs_download.py +++ b/gen3/tools/download/drs_download.py @@ -728,7 +728,7 @@ def get_download_url_using_drs( Returns: presigned url to object - status-code + status code """ headers = { "Content-Type": "application/json", From 9f28df4f0691b600e60a933af2aea2ea78dfdfb0 Mon Sep 17 00:00:00 2001 From: krishnaa05 Date: Wed, 10 Jun 2026 16:59:02 +0000 Subject: [PATCH 21/23] Apply automatic documentation changes --- docs/_build/html/_modules/gen3/tools/download/drs_download.html | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/_build/html/_modules/gen3/tools/download/drs_download.html b/docs/_build/html/_modules/gen3/tools/download/drs_download.html index 32fb9080..18af4288 100644 --- a/docs/_build/html/_modules/gen3/tools/download/drs_download.html +++ b/docs/_build/html/_modules/gen3/tools/download/drs_download.html @@ -785,7 +785,7 @@

Source code for gen3.tools.download.drs_download

Returns: presigned url to object - status-code + status code """ headers = { "Content-Type": "application/json", From 514c18341eab96d45d3a156119eadf64be279464 Mon Sep 17 00:00:00 2001 From: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Date: Wed, 10 Jun 2026 12:05:11 -0500 Subject: [PATCH 22/23] Update drs_download.py --- gen3/tools/download/drs_download.py | 1 - 1 file changed, 1 deletion(-) diff --git a/gen3/tools/download/drs_download.py b/gen3/tools/download/drs_download.py index e1c5a156..d4e79331 100644 --- a/gen3/tools/download/drs_download.py +++ b/gen3/tools/download/drs_download.py @@ -743,7 +743,6 @@ def get_download_url_using_drs( response.raise_for_status() data = response.json() return data.get("url", None), response.status_code - except requests.exceptions.Timeout: logger.critical(f"Was unable to download: {object_id}. Timeout Error.") except requests.exceptions.HTTPError as exc: From 9d3e4cf971e62e4ef4908fd025914c0bdbb21e93 Mon Sep 17 00:00:00 2001 From: krishnaa05 Date: Wed, 10 Jun 2026 17:06:15 +0000 Subject: [PATCH 23/23] Apply automatic documentation changes --- docs/_build/html/_modules/gen3/tools/download/drs_download.html | 1 - 1 file changed, 1 deletion(-) diff --git a/docs/_build/html/_modules/gen3/tools/download/drs_download.html b/docs/_build/html/_modules/gen3/tools/download/drs_download.html index 18af4288..8705a92d 100644 --- a/docs/_build/html/_modules/gen3/tools/download/drs_download.html +++ b/docs/_build/html/_modules/gen3/tools/download/drs_download.html @@ -800,7 +800,6 @@

Source code for gen3.tools.download.drs_download

response.raise_for_status() data = response.json() return data.get("url", None), response.status_code - except requests.exceptions.Timeout: logger.critical(f"Was unable to download: {object_id}. Timeout Error.") except requests.exceptions.HTTPError as exc: